Sample Case File - Promotion to Associate (Scientist)...BF Eames Case File –Tenure (July 2016) Section III: Page 1 of 137 Case File Section III: Material Provided from the Candidate

CANDIDATE COVER PAGE

To be completed by Department or College (in non-Departmentalized Colleges)

CANDIDATE TO BE CONSIDERED FOR: (i.e. Tenure, Continuing Status Promotion, Renewal of Probationary Period ) Promotion to Associate Professor

CANDIDATE INFORMATION

Candidate Name (surname, first name)

Eames, Brian

Department Anatomy & Cell Biology

College College of Medicine

Current Appointment (i.e. Associate Professor, Librarian etc.)

Assistant Professor

Date Appointed to Position February 1, 2012

Date of Renewal of Probationary Period (if applicable)

2015

Date of Last Promotion (if applicable)

Description of Appointment (i.e. tenure-track, with term, without term, continuing status)

Promotion

Time Period Under Review February 1, 2012 - June 30, 2016

Any other information relating to the Appointment (i.e. sabbatical or other leaves, etc. )

APPLICABLE STANDARDS

Indicate which standards were used

University Standards for Promotion and Tenure 2011 Standards

College Standards for Promotion and Tenure 2012 Standards

Department Standards for Promotion and Tenure

June, 2016

SAMPLE CASE FILE FOR PROMOTION (SCIENTIST)

Demian Sainz Biomedical Sciences Graduate Program 513 Parnassus Avenue Box 0505, Room HSE-1285 San Francisco, CA 94143-0505

[email protected]

Tel: (415) 476-8467 Fax: (415) 502-7970

April 5, 2016 RE: Brian F. Eames’ Graduation Status To Whom It May Concern, I am writing to confirm that Brian Frank Eames was awarded the Ph.D. degree from the Biomedical Sciences (BMS) Graduate Program at the University of California, San Francisco on December 31, 2003. Please accept this letter as official confirmation of Dr. Eames’ graduation. If you have any questions, please don’t hesitate to contact me. Sincerely yours,

Demian Sainz Program Coordinator Biomedical Sciences Graduate Program [email protected] Ph: (415) 476-8467


mailto:[email protected]

BF Eames Case File –Tenure (July 2016)

Section III: Page 1 of 137

Case File

Section III: Material Provided from the Candidate for Tenure

28 July 2016

Brian F. Eames, Ph.D. Assistant Professor

Department of Anatomy & Cell Biology University of Saskatchewan




Section III: Table of Contents

A. Curriculum Vitae………………………………………………………………………. p 3

B. Self-assessment on progress towards tenure…...……………………………………..... p 26

C. Category 2: Teaching ability & performance…………………………………………... p 28

i. Teaching dossier………………………………………………………. p 31

ii. Appendix A: Student evaluations (undergraduate courses)……………. p 36

iii. Appendix B: Peer evaluations (undergraduate courses)…….…………. p 75

iv. Appendix C: Representative lecture handout (undergraduate course

ACB325)……………………………………………………………….p 81

v. Appendix D: Student Evaluations (graduate supervision)…...…………..p 87

vi. Appendix E: Teaching workshop certificate and TIPS

clarification..................................................................………………………p 89

D. Category 3: Knowledge of discipline & field of specialization…………………………. p 91

i. Appendix F: Materials in support of invited talks..……………………. p 92

ii. Appendix G: Materials in support of invited manuscripts...………...…. p 103

iii. Appendix H: Materials in support of manuscripts that I peer-

reviewed……………………………………………………………..... p 106

iv. Appendix I: Materials in support of fellowships/grants that I peer-

reviewed………………………..………………..……………………. p 119

E. Category 4: Research & scholarly work………….……………………...……………... p 126

i. Appendix J: Accepted manuscript documentation……………………..p 130

ii. Appendix K: “Tenure talk” notice……………………………………..p 133

iii. Appendix L: “Tenure talk” audience feedback…..……………………..p 134

F. Category 6: Contributions to the administration or extension responsibilities…...….…. p 136




G. Category 7: Public service & contribution to academic & professional bodies……..….. p 137




Curriculum Vitae for Brian Eames

Form: Comprehensive CV Status: Final

Approved: 2016-07-18

1. Personal

Brian Eames Anatomy and Cell Biology College of Medicine

2. Academic Credentials

1996 B.S. (Honors), University of North Carolina at Chapel Hill, Biology. Thesis: Characterization of retroviral genome packaging: Analysis of a MuLV clone with two encapsidation sequences.

2003 Ph.D., UCSF, Biomedical Sciences. Thesis: On the genetic systems underlying skeletogenesis: Implications for the evolution of cartilage and bone.

3. Other Credentials

Nil

4. Appointments and Promotions

University Appointments

2012-02 to current Assistant Professor, Anatomy and Cell Biology/College of Medicine, University of Saskatchewan

5. Associate Memberships

5.1 Associate Memberships In Other Departments at the U of S




2012 to current Member, College of Graduate Studies and Research, University of Saskatchewan

2013-04 to current Member, Division of Biomedical Engineering, University of Saskatchewan

2013 to current Mentor, CIHR-Training grant in Health Research Using Synchrotron Techniques (THRUST), University of Saskatchewan

5.2 Associate or Adjunct Appointments at Other Institutions While Employed at the U of S

Nil

6. Leaves

Nil

7. Honours and Awards

Personal

1995 Student Intern Award, Pediatric AIDS Foundation

1996 Graduate Fellowship Honorable Mention, NSF

1997 Institutional Grant Student Recipient, National Institutes of Health (US)

1998 Travel Award, UCSF Graduate Student Association

2000 International Research Fellow, Company of Biologists Comment: Guy’s Hospital, London

2004 Best Poster, Orthopaedic Research Society Meeting

2005 Student Fellow, Marine Biological Laboratory Comment: Woods Hole, MA

2005 Student Fellow, Latin American Society for Developmental Biology Comment: São Paulo, Brasil

2006 Ruth L. Kirschstein Postdoctoral Fellow, National Institutes of Health (US)




2007 Best Postdoctoral Talk, Northwest Regional Developmental Biology Conference Comment: Friday Harbor, WA

2008 Best Poster, American Society for Matrix Biology meeting Comment: San Diego, CA

TIME OF APPOINTMENT

2013 Awarded beamtime at CLS, VESPERS beamline, CLS

2013 Awarded beamtime at CLS; VESPERS, MidIR beamlines, CLS

2014 Awarded beamtime at CLS; VESPERS, MidIR, BMIT beamlines, CLS

2014 Awarded beamtime at CLS; VESPERS, SXRMB, MidIR, BMIT beamlines

2015 Awarded beamtime at CLS: VESPERS, SXRMB, MidIR, BMIT beamlines

2015 Awarded beamtime at CLS: VESPERS, SXRMB, and MidIR beamlines

2016 Awarded beamtime at CLS: VESPERS, SXRMB

Student

2013 Ruiyi Guo: Biomedical Summer Research Scholarship, UofS CoM

2013 Suranjan Bairagi, MD. Accepted as student, CIHR-THRUST training program

2014 Connor Brenna: Undergraduate Student Research Award, NSERC

2014 Ruiyi Guo: Biomedical Summer Research Scholarship, UofS CoM

2014 Patsy Gomez-Picos PhD fellowship, Saskatchewan Innovation

2015 Andres Barrera Patlan, UofS CoM Biomedical research summer scholarship

2015 Connor Brenna, NSERC USRA summer scholarship

2015 Devin Brown, MSc scholarship, CIHR-THRUST




2015 Laura Romo Dorantes, Mitacs summer scholarship (UNAM, Mexico City)

2015 Yiwen Liu, NSERC USRA summer scholarship

2016 Andres Barrera Patlan: Biomedical Summer Research Scholarship, UofS CoM

2016 Connor Brenna: NSERC Undergraduate Student Research Award

2016 Megan Gallagher: NSERC Undergraduate Student Research Award

8. Previous Positions Relevant to U of S Employment

2003-11 to 2006-02 Postdoctoral scholar, Orthopaedic Surgery, University of California at San Francisco Comment: Under Dr. Richard A. Schneider

2006-02 to 2012-02 Postdoctoral fellow, Institute of Neuroscience, University of Oregon, Eugene, OR Comment: Under Dr. Charles B. Kimmel

9. Teaching Record

9.1 Scheduled Instructional Activity

YEAR COURSE INST ENRL YIH YCSH 2015-16 ACB 330., Principles of Development

2015-16 ACB 325., Advanced Cell Biology

2015-16 ACB 405., Topics in Cell Biology

2015-16 ACB 331., Methods in Cell & Developmen

2015-16 BMSC 220., Cell Biology

2015-16 BIOE 898., Tissue Engineering

2015-16 ACB 401., Undergraduate Research Project

2014-15 ACB 330., Principles of Development






2014-15 ACB 331., Methods in Cell and Developmen



3

2013-14 BIOE 898., Tissue Engineering

4.5

2013-14 ACB 401., Undergraduate Research Project

40

2013-14 ACB 331., Methods in Cell and Developmen

3


3


2


4.5


3

2012-13 BIOL 316., Molecular Genetics of Eukaryot

1


2


2

2012-13 ACB 405., Topics Cell Biology

3

2012-13 ACB 331., Methods Cell Dev Biol

3

TIME OF APPOINTMENT

2010-11 Biology BI355., Vertebrate Evolution and Devel

6

2009-10 Biology BI328., Principles of Dev Bio

60

2007-08 Biology BI428., Developmental Genetics

2

2007-08 Biology BI410., Evolution of Development

2

9.2 Unscheduled Instructional Activity

2016 to current Undergraduate research supervision: Megan Gallagher




2015 to 2016 Undergraduate research supervision: Joseph (Oghenevwogaga) Atake

2015 to current Undergraduate research supervisor, Andres Barrera Patlan

2015 to 2016 Undergraduate research supervisor, Yiwen Liu

2015 Undergraduate research supervisor, Laura Romo Dorantes

2013 to current Undergraduate research supervision: Connor Brenna

2012 to 2016 Undergraduate research supervision: Liam Epp

2013 to 2015 Undergraduate research supervision: Ruiyi Guo

2013 to 2014 Undergraduate research supervision: Samantha Rogers-Magiera

9.3 Postgraduate Students Supervised or on Their Committee

Nil

9.4 New or Revised Teaching Materials Developed or Authored

Nil

9.5 Substantially Revised or New Courses Developed and Approved

2014-15 ACB898, Skeletal Development & Evoluti.

9.6 Publications in Journals or Books Related to Teaching Methods

Nil

9.7 Attendance at Teaching Improvement Workshops and Conferences

2014 TIPS Workshop: "How learning works" (Oct14, Oct21, Nov4) Participant.

9.8 Teaching Awards or Recognitions Received

2005 Ace Award. Science & Health Education Partnership Comment: San Francisco Unified School District, San Francisco, CA

9.9 Other Teaching Related Activities




Nil

10. Theses Supervised

In Progress: Supervisor, Co-Supervisor, Advisory Committee Member, Chair, Other

2016 to current Co-supervisor (w/ Daniel Chen), Farhana Yasmin, MSc, Biomedical Engineering

2016 to current Advisory committee member, Taylor Lane, MSc, Toxicology

2015 Dean's Designate, Tracy McDonald, PhD, Toxicology

2014-08 to current Co-supervisor (with Ian McQuillan), Katie Ovens, MSc, Computer Science grad program

2014 to current Advisory committee member, MD Sarker, PhD, Biomedical Engineering

2015 to current Advisory committee member, Denver Marchiori, PhD, ACB

2014 to current Advisory committee member, Nasim Rostampour, MSc, ACB

2014 to current Advisory committee member, Bryan Johnston, PhD, ACB

2014-05 to current Supervisor, Devin Brown, MSc, Anatomy/Cell Biology grad program

2013-09 to current Supervisor, Suranjan Bairagi, MD, MSc, Anatomy/Cell Biology grad program

2014-05 to current Supervisor, Patsy Gomez-Picos, PhD, Anatomy/Cell Biology graduate program

2013-09 to current Co-supervisor (with Daniel Chen), Adeola Olubamiji, PhD, Biomedical Engineering grad program

2013-09 to current Co-supervisor (with Daniel Chen), Fu You, PhD, Biomedical Engineering grad program

2013 to current Chair, advisory committee, Kim Harrison, PhD, Anatomy/Cell Biology

2013 to current Advisory committee member, Paul Iyyanar, PhD, Pharmacy/Nutrition

2013 to current Advisory committee member, Joelle Nadeau, PhD, Anatomy/Cell Biology

2012 to current Advisory committee member, Ashley James, PhD, Toxicology




Complete: Supervisor, Co-Supervisor, Advisory Committee Member, External Examiner, Chair, Dean's Designate, Other

2012 to 2015 Advisory committee member, Martin Prusinkiewicz, MSc, Anatomy/Cell Biology

2012-06 to 2013 Advisory committee member, Johannes Menzel, MSc, Anatomy/Cell Biology

2012-06 to 2015 Advisory committee member, Denver Marchioni, MSc, Anatomy/Cell Biology

11. Books, Chapters in Books, Expository and Review Articles

Chapter in Book, Accepted Non-Peer Reviewed

2005 Miclau T, Schneider RA, Eames BF, Helms JA. Common molecular mechanisms regulating fetal bone formation and adult fracture repair. In: Lieberman JR, Friedlaender GE, editors. Bone Regeneration and Repair: Biology and Clinical Applications. Totowa, NJ: Humana Press, Inc.; 2005. p. 45-55.

Expository, Review or Journal Articles, Accepted Peer Reviewed

2016 Brown DS, Eames BF. Emerging tools to study proteoglycan function during skeletal development. Methods in Cell Biology. 2016;134:485-530. Comment: co-wrote this review with my MSc student

2015 Gomez-Picos P, Eames BF. On the evolutionary relationship between chondrocytes and osteoblasts. Frontiers of Genetics. 2015;6(297):1-15. Comment: co-wrote this review article with my PhD student

TIME OF APPOINTMENT

2003 Eames BF, de la Fuente L, Helms JA. Molecular Ontogeny of the Skeleton. Birth Defects Research (Part C). 2003;69:93-101.

Expository, Review or Journal Articles, Accepted Non-Peer Reviewed

2009 Zhang G, Eames BF, Cohn MJ. Chapter 2. Evolution of vertebrate cartilage development. Curr Top Dev BiolCurrent




topics in developmental biology. 2009;86:15-42. Epub 2009 Apr 14.

12. Papers in Refereed Journals

Published

2016 Olubamiji AD, Izadifar Z, Zhu N, Chang T, Chen DXB, Eames BF. Using synchrotron radiation inline phase-contrast imaging computed tomography to visualize three-dimensional printed hybrid constructs for cartilage tissue engineering. Journal of Synchrotron Radiation. 2016;23(3):802-12. Comment: 25% effort: I helped conceive of the experiments, supervised their execution, and co-wrote the paper

2016 Hanwell D, Hutchinson SA, ..., Eames BF, ...[26 others]..., Tropepe V. Restrictions on the importation of zebrafish into Canada associated with spring viremia of carp virus.. Zebrafish. 2016;13:S153-63. Comment: 2% effort: helped edit manuscript

2016 Edmunds RC, Su B, Balhoff JP, Eames BF, Dahdul WM, Lapp H, Lundberg JG, Vision TJ, Dunham RA, Mabee PM, Westerfield M. Phenoscape: Identifying candidate genes for evolutionary phenotypes. Molecular Biology and Evolution. 2016;33(1):13-24. Comment: 5% effort: I helped generate data and editted the manuscript

2016 Olubamiji AD, Izadifar A, Si J, Cooper DML, Eames BF, Chen DXB. Modulating mechanical behavior of 3D-printed cartilage-mimetic PCL scaffolds: Influence of molecular weight and pore geometery. Biofabrication. 2016;8(2). Comment: 20% effort: helped conceive and supervise experiments and analyses; editted manuscript

2016 Hackett MJ, George GN, Pickering IJ, Eames BF. Chemical biology in the embryo: In situ imaging of sulfur biochemistry in normal and proteoglycan-deficient cartilage matrix. Biochemistry. 2016;55(17):2441-51. Comment: 40% effort: I conceived of the project, helped carry out some experiments, and co-wrote the paper Featured article "ACS Editors' Choice"

2016 Izadifar Z, Chang T, Kulyk WM, Chen X, Eames BF. Analyzing biological performance of 3D-printed, cell-impregnated hybrid constructs for cartilage tissue




engineering. Tissue Engineering Part C Methods. 2016;22(3):173-88. Comment: 40% effort: I helped plan the project, supervised the experiments, and co-wrote the paper

2014 Yu J, Jheon AH, Ealba EL, Eames BF, Butcher KD, Mak SS, Ladher R, Alliston T, Schneider RA. Evolution of a developmental mechanism: Species-specific regulation of the cell cycle and the timing of events during craniofacial osteogenesis. Developmental Biology. 2014;385(2):380-95. Comment: This work originated during my first postdoc at UCSF. During my time at UofS, my contributions to this paper were in revising the manuscript.

2013 Eames BF, et al. FishFace: interactive atlas of zebrafish craniofacial development at cellular resolution. BMC Developmental Biology. 2013;13(1):23. Epub 2013 Jun. Comment: I helped develop and implement the web format of this freely-accessible online anatomical resource, generating about half of the images. I wrote the manuscript with CBK during my UofS employment. First author of eight from Oregon

2012 Huycke TR, Eames BF, Kimmel CB. Hedgehog-dependent proliferation drives modular growth during morphogenesis of a dermal bone. Development. 2012;139(13):2371-80. Epub 2012 May 26.

2012 Eames BF, Amores A, Yan YL, Postlethwait JH. Evolution of the osteoblast: skeletogenesis in gar and zebrafish. BMC Evol BiolBMC evolutionary biology. 2012;12:27. Epub 2012 Mar 7.

TIME OF APPOINTMENT

2011 Eames BF, Yan YL, Swartz ME, Levic DS, Knapik EW, Postlethwait JH, Kimmel CB. Mutations in fam20b and xylt1 reveal that cartilage matrix controls timing of endochondral ossification by inhibiting chondrocyte maturation. PLoS Genetics. 2011;7(8):e1002246. Epub 2011 Sep 9.

2011 Solem RC, Eames BF, Tokita M, Schneider RA. Mesenchymal and mechanical mechanisms of secondary cartilage induction. Dev Biol. 2011;356(1):28-39. Epub 2011 May 24.

2010 DeLaurier A, Eames BF, Blanco-Sanchez B, Peng G, He X, Swartz ME, Ullmann B, Westerfield M, Kimmel CB. Zebrafish sp7:EGFP: a transgenic for studying otic vesicle formation,




skeletogenesis, and bone regeneration. GenesisGenesis. 2010;48(8):505-11. Epub 2010 May 28.

2010 Eames BF, Singer A, Smith GA, Wood ZA, Yan YL, He X, Polizzi SJ, Catchen JM, Rodriguez-Mari A, Linbo T, Raible DW, Postlethwait JH. UDP xylose synthase 1 is required for morphogenesis and histogenesis of the craniofacial skeleton. Dev Biol. 2010;341(2):400-15.

2008 Eames BF, Schneider RA. The genesis of cartilage size and shape during development and evolution. Development. 2008;135(23):3947-58.

2008 Merrill AE, Eames BF, Weston SJ, Heath T, Schneider RA. Mesenchyme-dependent BMP signaling directs the timing of mandibular osteogenesis. Development. 2008;135(7):1223-34. Epub 2008 Feb 22.

2007 Eames BF, Allen N, Young J, Kaplan A, Helms JA, Schneider RA. Skeletogenesis in the swell shark Cephaloscyllium ventriosum. J Anat. 2007;210(5):542-54.

2007 Miller MR, Atwood TS, Eames BF, Eberhart JK, Yan YL, Postlethwait JH, Johnson EA. RAD marker microarrays enable rapid mapping of zebrafish mutations. Genome BiolGenome biology. 2007;8(6):R105. Epub 2007 Jun 8.

2005 Eames BF, Schneider RA. Quail-duck chimeras reveal spatiotemporal plasticity in molecular and histogenic programs of cranial feather development. Development. 2005;132(7):1499-509.

2004 Eames BF, Sharpe PT, Helms JA. Hierarchy revealed in the specification of three skeletal fates by Sox9 and Runx2. Dev Biol. 2004;274(1):188-200.

2004 Eames BF, Helms JA. Conserved molecular program regulating cranial and appendicular skeletogenesis. Dev Dyn. 2004;231(1):4-13.

1997 Contag CH, Spilman SD, Contag PR, Oshiro M, Eames B, Dennery P, Stevenson DK, Benaron DA. Visualizing gene expression in living mammals using a bioluminescent reporter. Photochemistry and Photobiology. 1997;66(4):523-31.

Accepted




2016 Ding HL, Hooper JE, Batzel P, Eames BF, Postlethwait JH, Artinger KB, Clouthier DE. MicroRNA profiling during craniofacial development: Potential roles for Mir23b and Mir133b.. Frontiers of Physiology. 2016;7:281.

2016 You F, Zhu N, Lei M, Eames BF, Chen XB. 3D printing of porous cell-laden hydrogel constructs for potential applications in cartilage tissue engineering.. ACS Biomaterials Science & Engineering. 2016;2(7):1200-10.

13. Papers in Non-Refereed Journals

Nil

14. Invited Papers/Abstracts in Published Conference Proceedings

Nil

15. Contributed (Non-Invited) Papers/Abstracts in Published Conference Proceedings

Abstracts, Published

2015 Bairagi S, Belev G, Chapman D, Cooper DLM, Dust W, Webb A, Zhu N, Eames BF. Is phase-contrast computed tomography more sensitive than magnetic resonance imaging in quantifying cartilage damage in osteoarthritis?[abstract]. In: Osteoarthritis and Cartilage 23 (Sup2): A258. OARSI World Congress.; 2015; Seattle, WA, USA.. 2015.

2014 Hackett MJ, George GN, Pickering IJ, Eames BF. Chemical biology in the embryo: Imaging sulfur in cartilage matrix of proteoglycan mutants[abstract]. Paper presented at: Society for Developmental Biology, 73rd Annual Meeting; 2014

16. Technical Reports Relevant to Academic Field

Nil

17. Book Reviews

Nil




18. Invited Lectures (Outside the U of S) and Invited Conference Presentations

2016 Eames BF. Experimental tests of heterochrony and heterotopy as mechanisms of skeletal evolution. University of Toronto at Scarborough, Department of Cell and Systems Biology. Toronto, ON, Canada.

2015 Eames BF. Patterning in larval stages? Intersections of skeletal histogenesis and morphogenesis. University of Oregon Institute of Neuroscience.. Eugene, OR, USA..

2015 Eames BF. Effects of bone loss on skeletons of chondrichthyans and Antarctic icefish. 4th Interdisciplinary Approaches to Fish Skeletal Biology meeting. Tavira, Portugal..

2014 Eames BF. Osteoarthritis: Identifying causes, increasing diagnostic power, and developing therapies. Laboratorio Nacional de Biociencias, Campinas, Brasil.

2014 Eames BF. Proteoglycan-dependent BMP signalling and osteoarthritis progression. Zebrafish Workshop. 7th Canadian Developmental Biology Conference.. Mont-Tremblant, QC, Canada.

2013 Eames BF. Genomic stories of skeletal development and evolution. College of Medicine, Vanderbilt University. Nashville, TN USA.

2012-04 Eames BF. On the evolution and development of cells that make the vertebrate skeleton. Interdisciplinary Center of Neuroscience, University of Valparaiso, Valparaiso, Chile.

2012-04 Eames BF. On the evolution and development of cells that make the vertebrate skeleton. United States Antarctic Program, Palmer Station, Antarctica.

2012-03 Eames BF. Tools to analyze the role of proteoglycans in zebrafish skeletogenesis.. Zebrafish Workshop, 6th Canadian Developmental Biology Conference. Banff, AB Canada.

2012-03 Eames BF. On the development and evolution of skeletal cell differentiation.. 6th Canadian Developmental Biology Conference. Banff, AB Canada.

TIME OF APPOINTMENT




2011 Eames BF. Timing is everything: Proteoglycans regulate the rate of skeletal development.. Faculty of Dentistry, McGill University, Montreal, QB Canada. [invited speaker].

2011 Eames BF. Skeletal proteoglycans: Regulators of developmental timing and morphogenesis.. Department of Anatomy & Cell Biology, University of Saskatchewan, Saskatoon, SK. invited speaker.

2011 Eames BF. Skeletal proteoglycans: Regulators of developmental timing and morphogenesis. invited speaker. Hospital for Special Surgery, New York, NY.

2010-03 Eames BF. On the evolution of skeletal cell differentiation. Northwest Regional Meeting, Society for Developmental Biology. Friday Harbor, WA..

2010 Eames BF. Proteoglycans talk back: ECM influences during skeletal cell differentiation.. Department of Molecular, Cell, & Developmental Biology, UCLA Orthopaedic Hospital, Los Angeles, CA. [invited speaker].

2010 Eames BF. Proteoglycans talk back: ECM influences during skeletal cell differentiation.. Center for Craniofacial Molecular Biology, USC, Los Angeles, CA. [invited speaker].

2009 Eames BF. Proteoglycans talk back: ECM influences during skeletal cell differentiation.. Department of Oral Biology, University of Illinois-Chicago, Chicago, IL. [invited speaker].

2009 Eames BF. Proteoglycans talk back: ECM influences during skeletal cell differentiation. Developmental Biology and Stem Cell Research, Hubrecht Institute, Utrecht, Netherlands.

2009 Eames BF. Proteoglycans talk back: ECM influences during skeletal cell differentiation. International Zebrafish Meeting. Rome, Italy.

2008-07 Eames BF, Swartz ME, Kimmel CB. Proteoglycan schizophrenia during endochondral ossification. Developmental Biology 319: 480. 67th Annual Meeting, Society for Developmental Biology. Philadelphia, PA.

2008 Eames BF. On the genetics and evolution of skeletogenesis: Cracking open the EvoDevo of hard stuff. Department of Biology, University of Hawaii, Honolulu, HI. [invited speaker].

2007-07 Eames BF, Kimmel CB. Molecular genetics of zebrafish endochondral ossification.. Developmental Biology 306: 420.




1st Pan American Congress in Developmental Biology. Cancun, Mexico.

2004-06 Eames BF, Allen NC, Young J, Schneider RA, Helms JA. Sharks exhibit all features driven by the genetic system underlying bone formation.. Journal of Morphology 260(3): 289. 7th International Congress of Vertebrate Morphology. Boca Raton, FL.

2003-02 Eames BF. On the specification of skeletal cell fate.. AAA Annual Meeting of the Federation of American Societies for Experimental Biology. San Diego, CA.

1998-05 Eames BF, Benaron DA, Stevenson DK, Contag CH. Construction and characterization of a red-emitting luciferase.. Photonics West Meeting. Carmel, CA.

19. Contributed (Non-Invited) Papers/Abstracts at Conferences

Abstracts-Oral

2015 Lei M, You F, Zhu N, Eames BF, Chen XB. Study on the effects of crosslinking density of alginate hydrogel on porous structure of 3D printed scaffolds based on synchrotron X-ray imaging and 3D visualization analysis.[abstract]. Paper presented at: American Society for Nondestructive Testing Annual Conference.; 2015; Salt Lake City, UT, USA.

2015 You F, Zhu N, Lei M, Eames BF, Chen XB. Preliminary study on cell-laden hydrogel constructs for cartilage tissue engineering.[abstract]. Paper presented at: 16th Annual Alberta Biomedical Engineering Conference.; 2015; Banff, AB, Canada.

2015 Brown D, Hackett MJ, Gomez-Picos P, Pickering IJ, George GN, Eames BF. Studying sulfur in chicken wings using X-ray fluorescence imaging.[abstract]. Paper presented at: CLS Annual User's Meeting.; 2015; Saskatoon, SK, Canada.

Abstracts-Poster

2016 Brenna CTA, Chang T, Guo R, Eames BF. Using Cell Communication to Promote the Formation of Bone.[abstract]. Poster presented at: 8th Canadian Developmental Biology Conference.; 2016; Banff, AB, Canada.




2016 Gomez-Picos P, Ashique AM, Ovens K, McQuillan I, Eames BF. GRNs for cartilage and bone formation overlap during cartilage maturation.[abstract]. Poster presented at: 8th Canadian Developmental Biology Conference.; 2016; Banff, AB, Canada

2015 Olubamiji AD, Izadifar Z, Zhu N, Chang T, Chen D, Eames BF. Non-invasive characterization of degradation profile of 3D-printed hybrid constructs for cartilage tissue engineering using synchrotron-radiation-inline-phase-contrast-CT.[abstract]. Poster presented at: 16th Annual Alberta Biomedical Engineering Conference.; 2015; Banff, AB, Canada.

2015 Si J, Olubamiji AD, Chen D, Eames BF. How pore-size and pore-orientation affect the mechanical properties of biofabricated PCL scaffolds.[abstract]. Poster presented at: 16th Annual Alberta Biomedical Engineering Conference.; 2015; Banff, AB, Canada.

2015 Patlan AB, Chang T, Eames BF. Effect of cell seeding density on ATDC5 cells in alginate constructs.[abstract]. Poster presented at: College of Medicine Undergraduate Student Research Day.; 2015; Saskatoon, SK, Canada.

2014 Brenna CTA, Chang T, Eames BF. Using cell communication to promote the formation of bone.[abstract]. Poster presented at: College of Medicine Undergraduate Student Research Day.; 2014; Saskatoon, SK, Canada.

2014 Guo R, Chang T, Eames BF. Effects of BMP signalling on bone formation.[abstract]. Poster presented at: College of Medicine Undergraduate Student Research Day.; 2014; Saskatoon, SK, Canada.

2014 Hackett MJ, George GN, Pickering IJ, Eames BF. Chemical biology in the embryo: Imaging sulfur in cartilage matrix of proteoglycan mutants[abstract]. Poster presented at: 7th Canadian Developmental Biology Conference; 2014; Mont Tremblant, QC

2014 Izadifar Z, Chang T, Eames BF, Kulyk W, Chen D. Biofabrication of chondrocyte-impregnated hybrid scaffolds for cartilage tissue engineering[abstract]. Poster presented at: 21st Annual Life & Health Sciences Research Day; 2014; UofS

2014 Bairagi S, Belev G, Chapman D, Cooper DM, Dust W, Webb A, Zhu N, Eames BF. An ex vivo comparison of MRI and




synchrotron-based phase-contrast CT in the human knee[abstract]. Poster presented at: 17th Annual Users Meeting, Canadian Light Source; 2014; Saskatoon

2013 Guo R, Pratt I, Desvignes T, Postlethwait JH, Cooper DM, Eames BF. Quantitative imaging of bone density in Antarctic icefish[abstract]. Poster presented at: CoM Undergraduate Student Research Day; 2013; UofS

2013 Batzel, Eames et al.. Micro-Processor, an automated pipeline for annotation, characterization, and expression analysis of miRNA reads from Illumina sequencing.[abstract]. Poster presented at: 4th Annual Meeting, NIH FaceBase Consortium.; 2013; Iowa City, IA.

2013 Ding et al. Identification and function of miRNAs in vertebrate midfacial development.[abstract]. Poster presented at: 4th Annual Meeting, NIH FaceBase Consortium.; 2013; Iowa City, IA.

2012-06 Batzel P, Eames BF, Desvignes T, Ding H-L, Artinger KB, Clouthier DE, Postlethwait JH. Micro-processor, an automated pipeline for annotation, characterization, and expression analysis of miRNA reads from Illumina sequencing.[abstract]. Poster presented at: 3rd Annual Meeting, NIH FaceBase Consortium.; 2012 Jun

2012-06 Ding H-L, et al. Identification and function of miRNAs in vertebrate midfacial development.[abstract]. Poster presented at: 3rd Annual Meeting, NIH FaceBase Consortium.; 2012 Jun

2012-06 Eames BF, et al.. Comparative genomics reveals miRNAs that give identity to developing mid-facial tissues.[abstract]. Poster presented at: 3rd Annual Meeting, NIH FaceBase Consortium.; 2012 Jun

TIME OF APPOINTMENT

eames. 34 such publications from 1995 to 2010 (specifics available upon request)[abstract]. In: Annual meetings of the Society for Developmental Biology, Orthopaedic Research Society, Western Society of Pediatrics, International Congress of Vertebrate Morphology, American Association of Dental Research, American Society for Matrix Biology; 1995 Feb-2010 Jul.

20. Patents Granted




Patents

2002 Eames B, Contag C.Red-shifted luciferase..Designed (with help from Dr. Contag) and performed all the experiments to produce a red-emitting firefly luciferase enzyme. The technology was developed for application to a variety of research purposes, including for use in whole-animal, in vivo, real-time tracking of gene expression using CCD camera photonic detection..USA.Patent No. 6,495,355 B1.. Comment: CH Contag and BF Eames, held by Stanford University

21. Research Grant and Contract Information

Grants, Awarded (Peer-Reviewed)

2016 to 2017 Gauthier J (Principal Investigator), Eames B (Co-investigator). Morphogenesis: Collaborative art-science laboratory residency and evolutionary science project culminating in immersive digital art exhibition, Canada Council for the Arts (CCA). Total: $50,200.00 for 2016 to 2017

2015 to 2016 Eames B (Principal Investigator), Chen X (Co-principal Investigator). Zonal articular cartilage tissue engineering, Canadian Institute of Health Research (CIHR). Total: $100,000.00 for 2015 to 2016

2015 to 2019 Eames B (Principal Investigator), Vizeacoumar F (Co-principal Investigator). High-throughput molecular imaging platform, John R. Evans Leaders Fund Canada Foundation for Innovation (CFI). Total: $1,259,321.00 for 2015 to 2019

2014-04 Cooper D (Co-principal Investigator), Boughner J (Co-principal Investigator), Eames B (Co-principal Investigator). "X-ray tube replacement for Micro-CT Imaging of Musculoskeletal Development and Adaptation”, NSERC Research Tools and Instruments (RTI) grant. Total: $61,736.00 for 2014-04

2014 to 2019 Eames B (Principal Investigator). Deciphering the functional role of proteoglycans in the etiology of osteoarthritis, New Investigator Salary Award CIHR. Total: $300,000.00 for 2014 to 2019

2013-04 to 2014-04 Eames B (Principal Investigator), Cooper D (Co-investigator), Chapman L (Co-investigator), Wiebe S (Co-investigator),




Dust W (Co-investigator). Improved Imaging for Osteoarthritis, RUH Foundation. Total: $25,000.00 for 2013-04 to 2014-04

2013-01 to 2016-01 Chen X (Principal Investigator), Schreyer D (Co-investigator), Kulyk W (Co-investigator), Eames B (Co-investigator), Wu A (Co-investigator), Dust W (Co-investigator), Bergstrom D (Co-investigator), Bugg J (Co-investigator), Niu CH (Co-investigator). Tissue Engineering Research Group, Phase 3 SHRF. Total: $750,000.00 for 2013-01 to 2016-01 Comment: I work with Dr. Bill Kulyk to organize the cartilage tissue engineering portion of the grant (which is ~25% of the grant).

2013 to 2018 Eames B (Principal Investigator). Evolution of skeletal cell transcriptomes, NSERC. Total: $205,000.00 for 2013 to 2018

2012-07 to 2015-06 Eames B (Principal Investigator). Temporal regulation of skeletal cell differentiation by proteoglycan-dependent growth factor signaling, SHRF. Total: $120,000.00 for 2012-07 to 2015-06

Grants, Awarded (Non-Peer-Reviewed)

2012-06 to 2015-06 Eames B (Principal Investigator). Temporal regulation of skeletal cell differentiation by proteoglycan-dependent growth factor signaling, University of Saskatchewan (College of Medicine, Dept Anatomy & Cell Biology, Provost office). Total: $110,000.00 for 2012-06 to 2015-06

22. Artistic Exhibitions or Performances

Nil

23. Professional Practice

Professional Practice

2015 to current Member, Canadian Orthopaedic Foundation Research Committee. review grant applications

2016 to current Beamline proposal reviewer. Stanford Synchrotron Radiation Lightsource (SSRL)

2013 to current Judge, Poster Competition, Life & Health Sciences Research Day, University of Saskatchewan.




2012 to current Judge, Poster Competition, College of Medicine Research Day, University of Saskatchewan.

2013 Web designer, undergraduate portion of ACB departmental website.

2007 to current Mentor, NIH e-Mentorship Program.

TIME OF APPOINTMENT

2006 to 2012 Zebrafish Information Network (ZFIN) web informatics external consultant.

2010 Local coordinator, 69th Annual Meeting, Society for Developmental Biology.

2008 Co-chair, Postdoc Symposium, 67th Annual Meeting, Society for Developmental Biology.

2002 to 2006 Member, Orthopaedic Research Society.

Manuscript Review (Peer Review Process)

2015 to 2016 Ad hoc manuscript reviewer. Developmental Biology (1 manuscript), EvoDevo (1 manuscript), Developmental Dynamics (1 manuscript), Journal of Visualized Experiments (1 manuscript) journals

2014 to 2015 Ad hoc manuscript reviewer. Gene Expression Patterns (1 manuscript), Frontiers in Genetics (1 manuscript), Connective Tissue Research (1 manuscript) journals

2013 to 2014 Ad hoc Manuscript reviewer. Zoomorphology (1 manuscript), Zoological Science (1 manuscript), Acta Biomaterialia (1 manuscript) journals

2012 to 2013 Ad hoc Manuscript reviewer. Zoological Science (1 manuscript), PLoS ONE (1 manuscript)

2011 to 2012 Ad hoc Manuscript reviewer. Developmental Biology (1 manuscript), Frontiers in Endocrinology (1 manuscript), Journal of Experimental Zoology (1 manuscript)

TIME OF APPOINTMENT

2007 to 2011 Journal of Anatomy, Gene Expression Patterns, Mechanisms of Development, Evolution & Development, Matrix Biology, Cell and Tissue Research. ad hoc reviewer

Grant Reviews




2015 to current Ad hoc grant reviewer. NSERC Discovery Grant (2 total)

2014 Ad hoc Grant Reviewer. operating grant, Medical Research Council (UK)

2014 Reviewer. Graduate Women in Science (GWIS) fellowship

TIME OF APPOINTMENT

2007 to 2009 National Science Foundation: Developmental Systems and Evo-Devo. ad hoc reviewer

24. Consulting Work Undertaken

Nil

25. Departmental and College Committees

2014 to current Committee member, Altschul and Munkasci Trust Funds Committee, ACB

2014 to current Representative, Imaging and Development Cluster, CoM Research Operations Committee

2013 to current Representative for Imaging and Development Cluster, Animal Use Committee, College of Medicine LASU

2013 to current Member, CoM/UGS graduate scholarship review committee, Anatomy/Cell Biology

2013 to current Member, Departmental Advocacy Committee, Anatomy/Cell Biology

2013 to current Member, Faculty Search Committee, College of Medicine (PRISM, Molecular Design)

2012 to current Supervisor, Fish Facility, College of Medicine LASU

26. University Committees

Nil

27. Professional and Association Offices and Committee Activity Outside University

Professional Associations and Societies




2016 to current Member, Society for Craniofacial Genetics and Developmental Biology

1998 to current Member, Society for Developmental Biology

28. Public and Community Contributions

University Related

2014 Host. Dr. Gage Crump, University of Southern California. Visiting Seminar Lecture: "Building and re-building the vertebrate face". 25Apr2014. Co-sponsored by the CoM Division of Biomedical Sciences and Department of Anatomy&Cell Biology.

Non-University Related

2015 Made publicly available Prost!, an algorithm for analyzing small RNA sequencing data (https://zenodo.org/record/35418#.VnHDvEo4FD8); co-authors Pete Batzel, Thomas Desvignes, Jason Sydes, and John H Postlethwait

29. Extension Publications and Activities

Extension Activities

2016 focus article in CLS newsletter: "Humans of the CLS: Meet Dr. Brian Eames". Canadian Light Source Comment: http://us2.campaign-archive1.com/?u=c8e6118e58466bb98d3f65bc9&id=7b80f43316&e=af0d6dd83b

2016 Interviewed for a GlobalTV segment about some of our work at the synchrotron “Synchrotron Matters”. http://globalnews.ca/video/2647912/using-the-synchrotron-for-arthritis-research/

2015 UofS article about winning entry in UofS image contest: “One fish two fish, red fish blue fish”. http://medicine.usask.ca/news/2015/one-fish-two-fish,-red-fish-blue-fish.php

2015 UofS article about CFI award: “Imaging platform helping create ‘Google-map’ of cancer, grow cartilage”. https://medicine.usask.ca/news/2015/imaging-platform-helping-create-google-map-of-cancer,-grow-cartilage.php


BF Eames Case File – Promotion (July 2016)

Self-assessment on progress towards promotion I started as Assistant Professor at the University of Saskatchewan (UofS) on 01 February

2012, working within the Scientist faculty career path. In agreement with feedback from colleagues here at the UofS, who have awarded me departmental (and/or University) merit increases every year as a UofS faculty, this Case File for Tenure argues that my progress has met the following target areas of USFA Guidelines for tenure: Funding (p20-21). I have brought almost 3 million dollars of grant money to the College of Medicine since I began working at the UofS. In my first six months, I secured a SHRF Establishment Grant ($120,000 over 3 years). In the following year, I was awarded an RUH Foundation Grant ($25,000 over 1 year), an NSERC Discovery Grant ($205,000 over 5 years), and a SHRF Research Group Grant ($750,000 over 3 years—1 of 10 Co-applicants). In my third year, I received a CIHR New Investigator Salary Award ($300,000 over 5 years) and an NSERC Research Tools and Instruments grant ($61,736—1 of 3 Co-applicants). Last year, I obtained a CFI grant ($1,259,321—1 of 2 Co-applicants) and CIHR project grant bridge funding ($100,000 over 1 year—1 of 2 Co-applicants). This year, I received a Canada Council for the Arts grant ($50,200 over 1 year—1 of 2 Co-applicants) and have two CIHR operating grants under review. Research (p11-13). I have initiated many complementary avenues of health-related and basic research in my lab and also through interdisciplinary collaborations with UofS colleagues, publishing fourteen papers (ten from my UofS lab, five as senior author). Different arms of my health-related research seek to improve the diagnosis, molecular understanding, and treatment of osteoarthritis (OA), a disease of articular cartilage which affects productivity and quality of life for about 50% Canadians over 60 years of age. Especially since OA appears late in life, and the average age of humans is increasing dramatically, this fundable line of research has good long-term prospects for my career. Specifically, I initiated a project with UofS collaborators (Drs. Dust, Cooper, Chapman, Wiebe, George, Pickering, Hackett) using novel synchrotron-based imaging techniques to visualize cartilage, which degrades during OA. Our results developing phase-contrast imaging are being prepared for submission, while we published (Biochemistry 2015 IF=3.0) a new technique, chemical-specific X-ray fluorescence for sulfur imaging of cartilage. Both of these studies might lead to earlier diagnosis of OA. To increase understanding the molecular etiology of OA, my lab uses zebrafish as a model organism. I established and supervise a modern zebrafish facility at LASU (Lab Animal Services Unit) in the College of Medicine. Unfortunately, due to restrictive CFIA import regulations that took effect January 2013, my progress in this line of research has been delayed (documented in our recent publication in Zebrafish, 2015 IF=1.9). However, we published some preliminary data in Methods in Cell Biology (2015 IF=1.4) and a collaborative project in Frontiers in Physiology (2015 IF=3.9), and other experiments to be submitted for publication this year suggest that we might have uncovered a novel molecular mechanism underlying OA disease progression. Regarding OA treatment, I have joined UofS colleagues (Drs. Chen and Kulyk) to develop a 3D-printing cartilage tissue engineering strategy for the replacement of damaged articular cartilage. This research has been very productive, resulting in four publications on the generation, biological performance, and non-invasive synchrotron monitoring of these 3D-printed constructs (Tissue Engineering Part C 2015 IF=4.6; Biofabrication 2015 IF=4.3; Journal of Synchrotron Radiation 2015 IF=2.7; ACS Biomaterials Science & Engineering no IF yet). Finally, I established research in my lab on the evolution of cartilage and bone. In addition to molecular and histological studies of cartilaginous fish, we employ cutting-edge techniques (laser-capture microdissection of small groups of skeletal cells, and RNAseq) to catalogue all expressed genes in skeletal cells of various animals. In collaboration with UofS colleague Dr. McQuillan, we compare these patterns of gene expression to evaluate the evolution of skeletal cells. While these results are being written up, we published two papers on other evolutionary projects (Molecular Biology and Evolution 2015 IF=9.1; Frontiers in Genetics no IF yet).



BF Eames Case File –Promotion (July 2016)

Supervision (p9-10). Since joining UofS, I have supervised seventeen students, eight technicians, and one postdoc, and I also have served on twelve graduate advisory committees. I have supervised or co-supervised nine undergraduates (Ruiyi Guo, Samantha Rogers-Magiera, Liam Epp, Connor Brenna, Yiwen Liu, Andres Barrera Patlan, Laura Romo Dorantes, Joseph Atake, Megan Gallagher), eight graduate students (MSc: Suranjan Bairagi, MD, Devin Brown, Katie Ovens, Joseph Atake, Farhana Yasmin; PhD: Patsy Gomez-Picos, Adeola Olubamiji, Fu You), eight technicians and research associates (Liam Epp, Debbie Brown, Colleen Zielke, Taunia Sawatsky, Connor Brenna, Albert Mark, Tuanjie Chang, PhD, Amir Ashique, PhD), and one postdoc (Zohreh Izadifar). Almost all students applied successfully for international (Mitacs, Conacyt), national (NSERC), provincial (SIOGS), or university (Dean’s) scholarships. I served on MSc advisory committees for Martin Prusinkiewicz, Denver Marchiori, and Johannes Mendel, and currently serve on two MSc (Nasim Rostampour, Taylor Lane) and seven PhD (Ashley James, Bryan Johnston, Denver Marchiori, Joelle Nadeau, Kim Harrison, MD Sarker, Paul Iyyanar) advisory committees. Teaching (p31-34). Because my faculty appointment is a research Scientist, I have received limited teaching assignments while I set up my research program. Since I value teaching and recognize the importance of recruiting undergraduates to do research, however, I guest lecture and help run labs in many courses, including those related to Cell Biology (BMSC220, ACB325, ACB405), Developmental Biology (ACB330, ACB331, BIOL316), and Tissue Engineering (BIOE820). I also developed a graduate course on the development and evolution of skeletal tissues (ACB898) with Dr. Julia Boughner. Service (p22-25). I have served on six university and departmental committees, including the Research Operations Committee, which plays a major role in determining how the new infrastructure of health sciences research in the University is organized efficiently and effectively, and also a faculty search committee for the PRISM research group on campus. I am an active member of the Society for Developmental Biology, and I am an ad hoc reviewer for two to three journal articles a year. I have reviewed fellowship applications for the international organization Graduate Women in Science and grant applications for NSERC and the Medical Research Council (UK). Finally, I serve on the Canadian Orthopaedic Foundation Research Committee.





Category 2: Teaching ability & performance Many details pertinent to Category 2 are outlined in my standardized CV (p6-10) and teaching dossier (p31-37), including a record of teaching roles, summary of students supervised, supervisor committee participation, and reviews of teaching. Here, I summarize those details after providing a statement of my philosophy of teaching. Philosophy of teaching I believe that each generation’s scientific and cultural advances are caused in large part by the selfless efforts of the previous generation’s teachers. Perhaps due to the fact that I was raised by a woman who dedicated her life to teaching, I value strongly the obligation to potentiate young minds for innovative thought. In particular, my teaching philosophy is to convey complex principles in basic terms that people from a variety of backgrounds can synthesize. For example, many students come to class with different experience with, or objectives for, the subject at hand. Therefore, I think it crucial to present the same material from multiple viewpoints, making analogies with more common concepts that the students already know. Where possible to interact with students, I have been able to determine their perspective and find common ground for them to appreciate concepts in the course. In general, my teaching experience informs me that students respond most strongly to interactive environments, so I strive to incorporate in-class problem sets, allowing the students to work in small groups through complex ideas together, even in large classes. Student feedback I have received indicates this to be particularly helpful in their performance on tests. This applies in a broader context as well, since many teaching curricula are moving away from didactic lectures to more interactive problem solving.

A technique that I employ often in my teaching is related to the Socratic method of question-based learning. In addition to simply lecturing students, imprinting concepts on their minds, I find it useful to ask a critical question in anticipation of the next concept. This practice accomplishes three main objectives. First, students must stop their train of thought and focus on the subject at hand. Second, the response that I get allows me to understand how well the class is following the lecture material. Third, and most importantly, this process demands that students synthesize information to which they’ve been exposed, which provides a crucial context for learning. I believe that when the students realize that there is a flow of logic behind the information in the lecture, it is easier to remember. An example of this approach is when I meet with students that I supervise in the lab. I do not tell them exactly which experiments to do, and how to do them. I ask them questions related to the hypothesis of their project, to ensure that the proposed experiments will meet objectives required to test that hypothesis. Also, I ask them about the methods that they propose to use, and whether those methods are appropriate to answer the specific question at hand. Sometimes, this approach frustrates students, who simply may want to know “the answer”, but I feel strongly that their learning is improved with this teaching philosophy.

Record of teaching roles

Undergraduate courses and supervising. In most years since joining the UofS, I have prepared and delivered lectures for courses in Cell Biology (BMSC220, ACB325, ACB405) and Developmental Biology (BIOL316, ACB330). I also lecture in and help organize a laboratory in Developmental Biology (ACB331). I prepared and graded exam questions for BMSC220, ACB325, ACB330, and ACB405. My lecture experience at the UofS is somewhat limited because my time is protected for research, due to my appointment as Scientist faculty, and also due to requirements of my CIHR




New Investigator award. I do have experience as sole Instructor for an undergraduate course while a postdoctoral fellow at the University of Oregon, where I taught the upper-level course Developmental Biology and lab. When my research program has been established for a couple more years, I would be happy to lead a class and lab at the UofS, taking advantage of my extensive training in anatomy, histology, developmental biology, cell biology, molecular biology, genetics, physiology, and evolution. Also, I realized quickly that the best pipeline to recruit graduate students is through UofS undergrads, so I actually volunteered for over half of the lectures listed above. As a result, I have been able to supervise nine undergraduate students (Ruiyi Guo, Samantha Rogers-Magiera, Liam Epp, Connor Brenna, Yiwen Liu, Andres Barrera Patlan, Laura Romo Dorantes, Joseph Atake, Megan Gallagher) on research projects in my lab here, most of which were funded by local and federal scholarships. Three students have finished an Honors project (ACB401) in my lab, and three more students plan to this coming fall. I have high expectations for the performance of students and technicians in my lab, including undergrads. All of my students are required to present their data at lab and university meetings, and Connor recently earned the right to present his work at a national meeting (Canadian Society for Developmental Biology) in Banff, AB.

Graduate courses and supervising. I developed and taught two graduate courses, one on the development and evolution of skeletal tissues (ACB898) with Dr. Boughner, and the other tissue engineering (BIOE820) with Drs. Chen, Kulyk, Kelly, Schreyer, and Zhu. The majority of my teaching experience with graduate students at the UofS has been in supervising their theses. I was able to recruit successfully to my lab three MSc students (Suranjan Bairagi, MD, Devin Brown, Joseph Atake) and one PhD student (Patsy Gomez-Picos), and I also co-supervise three Bioengineering students (MSc: Farhana Yasmin; PhD: Adeola Olubamiji, Fu You) and one Computer Science student (MSc: Katie Ovens). All but one of these students have been awarded local, provincial, or international fellowships under my supervision. In addition to the students regularly presenting their work at lab and university meetings, Suranjan, Fu, Adeola, Katie, and Patsy presented data at national (Canadian Society for Developmental Biology, Alberta Biomedical Engineering, Great Lakes Bioinformatics) and international (Osteoarthritis Research Society International) meetings. My students have published six papers so far, and we currently have two papers under revision and five being written for submission.

Summary of candidate’s understanding of student and peer evaluations

Evaluations of my teaching are generally positive (they average ~4 on a scale of 5 every year—see Appendix A, p38-76), but there is always room for improvement, and I already have responded to those evaluations. For example, my colleague Dr. Kulyk worried that I was anthropomorphizing too much during my Developmental Biology (ACB330) lecture, so I made sure to choose my wording much more carefully to reflect the objective scientific viewpoint. My previous student feedback (at Oregon) demonstrated the importance of ensuring that my lectures are posted the day before my lecture, and I have always done this at the UofS. I have had similar requests for posting additional lecture notes from students, but I feel that this discourages them from attending lectures, which is a crucial means of student learning, so I did not honor those requests. All UofS students requested clear objectives for each lecture, which I feel dilutes the learning experience, since then they only focus on those objectives. However, I now emphasize these objectives at the beginning of each lecture, summarizing them again at the end of the lecture. Finally, my colleague Dr. Krone




suggested a visual model that I could employ in my Cell Biology lecture (BMSC220) in order to help students learn the material. The next lecture (two days later), I honored his suggestion, and I could see immediately a positive response from the students.

Improvements/enhancements to teaching performance

I recognize the importance of a teacher constantly revising and updating lectures, while at the same time advancing the overall techniques and strategies employed—especially since education studies increasingly call into question traditional teaching approaches. I have a lot of experience in performance arts (acting, singing, playing instruments), during which I learned how invaluable audience feedback is. With this in mind, I have responded to student and peer evaluations of my teaching, as outlined above. My commitment to providing students with the best possible learning experience is apparent in my job prior to beginning my UofS position. I completed a course offered at the University of Oregon for “First-Time Instructors”, during which I was impressed with the many new technological advancements used in the modern classroom, such as Blackboard web assignments and real-time feedback from students in the classroom using Clickers. Without such training, I would have been unprepared for Blackboard use in my lectures at the UofS! Since starting at the UofS, I took a TIPS course, “How Learning Works”, which emphasized the importance of flipped classrooms and alternate learning modes that can be addressed in different lecture strategies. Finally, I have many mentors at the UofS to help me improve my teaching, including Jennifer Chlan-Fourney, Pat Krone, and Val Verge.




Last updated on 05Jul2016

TEACHING DOSSIER NAME: Eames, Brian F.

DEGREES: Biology (B.S.) 1996 Univ North Carolina-Chapel Hill Biomedical Sciences (Ph.D) 2003 Univ California-San Francisco

POSITIONS: Assistant Professor 2012-present Univ Saskatchewan

TEACHING AWARDS

UNDERGRADUATE TEACHING

NOTE: Courses for which student evaluations are provided are marked "*" Courses for which evaluation by peers is provided are marked "" Courses for which I was the Course director are marked "+" Courses for which I prepared a manual, or handout (described later) are marked "@"

TEACHING HOURS AND ENROLMENT

lecture-based 2012-13 2013-14 2014-15 2015-16

BMSC220 (Cell Biology) Enrolment 150* 150* 200* 300* Total hours lecturing 3 3 3 3

ACB330 (Principles of Development) Enrolment 40* 40* 40* 60* Total hours lecturing 2 4.5 6 6

ACB325 (Advanced Cell Biology) Enrolment 40* 40* 40* 40* Total hours lecturing 2 2 4 4

tutorial/small group/laboratory

BIOL316 (Molecular Genetics of Eukaryotes) Enrolment 7 Total hours lecturing 1

ACB405 (Current Topics in Cell Biology) Enrolment 8 8* 11 20*




Total hours lecturing/small group3 3 3 6 ACB331 (Methods in Cell and Developmental Biology) Enrolment 30 30* 30* 30* Total hours lecturing/laboratory 3 3 3 3 ACB401 (Undergraduate Research Project) Enrolment 3 (1 mine) 8 (2 mine) Total hours lecturing/laboratory 40 80 Total hours Lectures/groups 14 57 19 102 Bedside teaching STUDENT EVALUATION OF UNDERGRADUATE TEACHING As shown in Appendix A (p35-73), I have extensive student evaluations of my undergraduate teaching, and they are relatively high. Typically, I get ~4 (out of 5 point scale) on each aspect of my teaching in all classes. The lowest evaluations that I received are in BMSC220, which is an entry-level course in Cell Biology for two to three hundred students. I give two lectures on cell signalling, a very complex subject, while the rest of the course is delivered by two other professors. Student evaluations generally reflect the complexity of the subject and the fact that my lecture format is slightly different in style from the other two professors. The rest of my teaching is in third- and fourth-year courses, and the evaluations are slightly higher. PEER EVALUATION OF UNDERGRADUATE TEACHING As shown in Appendix B (p74-79), peer evaluations of my undergraduate teaching are relatively high. Typically, I get ~4 (out of 5 point scale) on each aspect of my teaching in all classes. I have been evaluated by Dr. Val Verge in my 2013 lectures in ACB325 (Advanced Cell Biology), by Dr. Bill Kulyk on my 2013 lectures in ACB330 (Principles of Development), and by Dr. Pat Krone on my 2015 lectures in BMSC220 (Cell Biology). Comments on my teaching by my peers include that I have an organized presentation format and can communicate effectively with the students, both of which are points of emphasis, as outlined in my “Philosophy of teaching” section (p28). HANDOUTS/MANUALS WRITTEN TO ACCOMPANY UNDERGRADUATE TEACHING In Appendix C (p80-85), I provide an example of my teaching lectures, which I provide to students at least the day before the lecture. SUMMER STUDENTS (UNDERGRADUATE) Year Name of Student Co-supervisors(if applicable) 2013 Ruiyi Guo 2013 Connor Brenna 2014 Ruiyi Guo 2014 Connor Brenna




2015 Yiwen Liu 2015 Connor Brenna 2015 Laura Romo Dorantes (Mitacs scholarship from Mexico) 2015 Andres Barrera Patlan 2016 Connor Brenna 2016 Andres Barrera Patlan 2016 Megan Gallagher GRADUATE / RESIDENT* TEACHING 2013-14 2014-15 2015-16 BIOE898/820 (Tissue Engineering) Enrolment 5 4 Total hours lecturing/discussion 4.5 9 ACB898 (Skeletal Development and Evolution) Enrolment 3 Total hours lecturing/discussion 16 Total hours Lectures/groups 4.5 16 9 LECTURES, SMALL GROUP DISCUSSIONS GRADUATE STUDENTS AND POSTDOCTORAL FELLOWS MSc Students (5) Suranjan Bairagi, MD (admitted Anatomy and Cell Biology program 2013; suspended program in 2015 upon acceptance to residency in Family Medicine) Devin Brown (admitted Anatomy and Cell Biology program 2014) Katie Ovens (admitted Computer Science program 2014, co-supervised with Dr. Ian McQuillan) Farhana Yasmin (admitted Biomedical Engineering program 2015, co-supervised with Dr. Daniel Chen) Joseph Atake (admitted Anatomy and Cell Biology program 2016) PhD Students (3) Patsy Gómez-Picos (admitted Anatomy and Cell Biology program 2014) Adeola Olubamiji (admitted Biomedical Engineering program 2012, co-supervised with Dr. Daniel Chen) Fu You (admitted Biomedical Engineering program 2013, co-supervised with Dr. Daniel Chen) Postdoctoral trainees (1) Zohreh Izadifar, PhD (admitted 2015) SUPERVISION / SUPERVISORY COMMITTEES




Date Name of Student MSc/PhD Dept/Faculty Supervisor Residents PostDocs 2012-present Ashley James PhD Geology Dr. Pickering 2013-2015 Denver Marchiori MSc ACB Dr. Boughner 2013-present Joelle Nadeau PhD ACB Dr. Verge 2013-present Kim Harrison (I am Chair) PhD ACB Dr. Cooper 2013-2015 Martin Prusinkiewicz MSc ACB Dr. Harkness 2013-present Paul Iyyanar PhD Pharmacy Dr. Nazarali 2014-present MD Sarker PhD Biomedical Eng. Drs. Chen/Schreyer 2014-present Nasim Rostampour MSc ACB Dr. Boughner 2014-present Bryan Johnston PhD ACB Dr. Cooper 2015-present Denver Marchiori PhD ACB Dr. Boughner 2016-present Taylor Lane MSc Toxicology Dr. Hecker SUMMER STUDENTS Year Name of Student Co-supervisors(if applicable) EVALUATIONS BY STUDENTS / PEERS OF GRADUATE / RESIDENT TEACHING As shown in Appendix C (p86-87), student evaluations of my graduate supervision are complimentary. Devin Brown and Patsy Gómez-Picos both commented that they receive useful direction from me, yet I also gave them opportunities to develop independently as academic scientists. Their letters also reflect the fact that I cater my supervision to the career goals of the students. HANDOUTS/MANUALS/PROTOCOLS WRITTEN TO ACCOMPANY GRADUATE / RESIDENT TEACHING DISTINCTION ACHIEVED BY GRADUATE STUDENTS/ RESIDENTS/ POSTDOCTORAL FELLOWS Almost all of my graduate students have received scholarship support for their studies, including from departmental (ACB), college (CoM; Dean’s), national (CIHR THRUST; NSERC), and international (Mitacs; Conacyt) sources. In addition, both Devin Brown and Patsy Gómez-Picos received awards for best posters at the CoM Biomedical Science Symposium. PROFESSIONAL DEVELOPMENT TEACHING WORKSHOPS, SEMINARS ETC. ATTENDED Year Duration Title Workshop organizer 2014 16 hrs How learning works Gwenna Moss Centre




(see Appendix E (p88-89) for certificate of completion, and also email from Carla Zorn indicating that this can serve me in lieu of the TIPS for Faculty course) TEACHING WORKSHOPS, SEMINARS ETC. PRESENTED EXTERNAL TEACHING TEACHING INNOVATION ADMINISTRATION ASSOCIATED WITH TEACHING PUBLICATIONS/PRESENTATIONS CONCERNING TEACHING SELF-EVALUATION Perhaps because my mother was a teacher, I know that there is always room for improvement in my teaching. Many aspects of teaching self-evaluation are described above (p27-29), but a few major points stick out. I have learned how to focus my lectures on discrete objectives for undergraduates, because they need that focus at their level of learning. In addition, I recognize that academic jobs are hard to obtain, so I learned that I need to facilitate a variety of career options for my graduate students. In short, my supervising and teaching approaches need to continually evolve with the market for my students. OTHER MATERIAL




Appendix A. Student evaluations (undergraduate courses) BMSC220 (2012-13, Term 1)




ACB325 (2012-13, Term 2)




ACB330 (2012-13, Term 2)




BMSC220 (2013-14, Term 1)




ACB331 (2013-14, Term 1)




ACB325 (2013-14, Term 2)




ACB330 (2013-14, Term 2)




ACB405 (2013-14, Term 2)













BMSC220 (2014-15, Term 1)













ACB331 (2014-15, Term 1)










ACB325 (2014-15, Term 2)










ACB330 (2014-15, Term 2)













BMSC220 (2015-16, Term 1)













ACB331 (2015-16, Term 1)







ACB325 (2015-16, Term 2)













ACB330 (2015-16, Term 2)










ACB405 (2015-16, Term 2)




Appendix B. Peer evaluations (undergraduate courses) ACB325 (2012-13, Term 2)




ACB330 (2012-13, Term 2)










BMSC220 (2015-16, Term 1)







Appendix C. Representative lecture handout (undergraduate course ACB325)



















Appendix D. Student evaluations (graduate supervision) Devin Brown (MSc student in lab, started May 2014)




Patsy Gómez-Picos (PhD student in lab, started May 2014)




Appendix E. Teaching workshop certificate and TIPS clarification

RE: Info Inbox x

Zorn, Carla <[email protected]>

Apr 8

to Brian, Adel

Hi Brian, I honestly don’t think it will be an issue, but I don’t want to speak for the CRC. However, I can tell you that student and peer evaluations outweigh (by a mile) the fact that you’ve taken TIPS – and you have obviously taken a ‘teaching workshop’. CRC definitely note when the TIPS course is in someone’s CV, but do not penalize faculty when it’s not specifically mentioned. So my opinion is you shouldn’t worry about it. However, I’ve inquired (and will let you know) when I hear if there is a TIPS course planned for the near future.




Sound alright? Carla Carla Zorn Admin Coordinator Faculty Affairs College of Medicine, U of Saskatchewan 107 Wiggins Rd., Rm 5D40 Saskatoon, SK S7N 5E5 Ph: 306-966-1378 Fax: 306-966-6164 From: [email protected] [mailto:[email protected]] On Behalf Of Brian F. Eames Sent: Friday, April 08, 2016 10:12 AM To: Mohamed, Adel <[email protected]>; Zorn, Carla <[email protected]> Subject: Fwd: Info Carla, The workshop was registered as a TIPS course, and it was for faculty. This was an honest mistake, which I don't feel should stand in the way of my tenure application this June. How do I resolve this issue quickly? Thanks, Brian


tel:306-966-1378

tel:306-966-6164







Category 3: Knowledge of discipline & field of specialization Invited lectures and presentations Since my appointment at UofS 01Feb2012, I have delivered nine invited lectures at national and international venues (including five different countries). I gave three talks at Canadian Developmental Biology meetings in Banff, AB (2012) and Mont-Tremblant, QC (2014) and a seminar at the University of Toronto at Scarborough (ON). In addition, I will give an invited seminar at the University of Calgary in September 2016. Also, I expanded notoriety of the UofS via invited seminars at Palmer Station of the United States Antarctic Program (Antarctica), University of Valparaiso (Chile), Vanderbilt University (Nashville, TN, USA), National Laboratory of Biosciences (Campinas, Brasil), and University of Oregon (Eugene, OR USA). I was an invited speaker at the Interdisciplinary Approaches to Fish Skeletal Biology meeting in Tavira, Portugal. Finally, I have given seven invited seminars outside of my department at the UofS, including Biochemistry, Microbiology & Immunology, Biology, Surgery, PRISM, and CIHR-THRUST. These presentations reflect a growing reputation in my field at local, national, and international venues. Invitations to publish and edit research and other academic contributions I accepted two offers to contribute review papers at respectable journals. Sylvain Marcellini invited me to contribute a paper on the Research Topic in the section Evolutionary and Population Genetics entitled “Evolution of organismal form: from regulatory interactions to developmental processes and biological patterns” for the journal Frontiers in Genetics (no IF yet). My PhD student, Patsy Gómez-Picos, and I wrote an article on the evolution of cartilage and bone, which was published last year. Bill Detrich (along with Len Zon and Monte Westerfield) invited me to contribute a book chapter for “The Zebrafish—Cellular and Developmental Biology” in the book series Methods in Cell Biology. My MSc student, Devin Brown, and I wrote an article about using zebrafish to study proteoglycan function, which was published this year. Service as peer reviewer of grants and other materials In the past four and a half years, I have reviewed fourteen journal manuscripts for publication, three grants, and one fellowship. I reviewed one article apiece for Frontiers of Endocrinology (no IF yet), Developmental Biology (5yr IF=3.8), Journal of Experimental Zoology Part B (5yr IF=2.2), PLoS ONE (5yr IF=4.2), Gene Expression Patterns (5 yr IF=1.8), Zoomorphology (5yr IF=1.2), Connective Tissue Research (5 yr IF= 1.9), Frontiers in Genetics (no IF yet), EvoDevo (5 yr IF=3.4), Developmental Dynamics (5 yr IF=2.5), Journal of Visualized Experiments (2015 IF=1.3), and Acta Biomaterialia (5yr IF=6.2); and two articles for Zoological Science (5yr IF=1.0). I reviewed an operating grant for the Medical Research Council (UK), a fellowship for the Graduate Women in Sciences (USA), and two NSERC Discovery Grants. I typically volunteer as a judge for the poster competitions of the Life & Health Sciences and also College of Medicine Research Days on campus at UofS. Every year, I review at least one or two grants for UofS internal review panels of CIHR and NSERC grants. These service instances reflect my growing status in my field of specialization. Documentation of invited seminars, invited manuscripts, manuscripts that I peer-reviewed, and grants that I peer-reviewed are provided in Appendices F (p92-102), G (p103-105), H (p106-118), and I (p119-125), respectively.




Appendix F: Materials in support of invited talks Invitation to give a talk at Canadian Developmental Biology Meeting; Zebrafish Workshop talk (March 2012) On Wed, Feb 22, 2012 at 3:18 PM, Declan Ali <[email protected]> wrote: Hi everyone, Thank you to everyone who has submitted Abstracts and registered for theZebrafish Workshop in Banff. If you have not already done so, please submit presentation titles, abstracts and registration fees as soon as possible. It is not too late to do so and my address is listed at the bottom of this email. I would also like to remind you to please contact the Banff Center to book your accommodations. The address and contact information is included at the end of this email message. There are approximately 30 registrants and it looks like we will have an exciting one day meeting of short talks and posters. I hope to have an itinerary finalized by Friday, March 2 and will email it to all of the attendees. I will also have additional copies of the itinerary and receipts for everyone inBanff. Best wishes, and please look for further email messages from me as we approach the meeting date. Declan Banff Center:

Tel: 1.877.760.4595 or 403.762.6485

Fax: 403.762.6202

Reservations 1.800.884.7574

Box 1020, 107 Tunnel Mountain Drive, Banff, Alberta, Canada T1L 1H5

E-mail: [email protected] · www.banffcentre.ca

-- Declan W. Ali, PhD Professor and Associate Chair, Undergraduate Department of Biological Sciences CW-405 Biological Sciences Bldg. University of Alberta Edmonton, Alberta Canada, T6G 2E9 Tel: 780.492.6094 Fax: 780.492.9234 email: [email protected] On Sun, Jan 15, 2012 at 1:39 PM, Declan Ali <[email protected]> wrote: Hi everyone, I hope your Christmas break was refreshing. To follow up on this email I sent earlier,



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The workshop will be held on March 8th at the Banff Centre. The contact information to book your rooms is presented at the end of this email message. Please make the bookings at your earliest convenience. You will need to arrive on March 7 inorder to start at 8:00 AM on March 8. The projected cost of a room is $62.50 per person for a double room and $125 per person for a single room per night. The Banff centre is supplying all meals for the meeting (dinner on March 7th, breakfast and lunch on March 8th and continuous snacks and refreshments during the day on March 8th until 4:00 PM) at a flat rate of $122 per person. This fee is included when booking your accommodations. To register for the workshop, we are asking a $30 registration fee to be sent by cheque to My address (listed below) at the University of Alberta.Please make the cheque payable to "Zebrafish Workshop 2012". These minor fees will be used to cover costs of poster boards, abstract booklets, name tags etc. We ask that there is only 1 short talk per lab. These talks will be ~12 mins long with a 3 minute question period. We anticipate approximately 14-16 talks. The remainder of the presentations will be in poster format. When registering please send me an email requesting a talk or poster and I will respond to confirm your request. Key dates are given at the end of the email. Key Dates as follows: ACCOMMODATION Available immediately REGISTRATION February 6 (Monday) TALK or POSTER REQUEST February 6 (Monday) ABSTRACT SUBMISSION February 20 (Monday) Hope to hear from you soon. Best Wishes, Declan




Invitation to give a seminar at University of Valparaiso, Chile (March 2012) On Sun, Mar 4, 2012 at 6:26 AM, Kathleen Whitlock<[email protected]> wrote: Hi Brian, Sorry for the lack of response....the vacation never happened because we were in a car accident. I have been recovering from a blow to the head and neck... fortunately no serious damage. Super! I will book you for the Friday the 29th slot. Please send a title and how you would like your affiliation to appear on the flyer. I will arrange to have a person pick you up at the airport and bring you to Valpo. You can stay with us, we have a big house within walking distance of the university (...if you prefer a hotel let me know). We can show you around Valpo, it is a very interesting city. OK please send: Flight information Title for talk Affiliation best wishes kate

2012/2/22 Brian Eames <[email protected]> Well, guess you didn't have a chance to read my email before taking off on holiday, but I need to book my flight before you return on 02Mar, so I'm gonna guess what might work. I'll plan on landing in Santiago on Wednesday 28Mar with enough time to catch a bus over to Valparaiso before it gets too late. If it works out that I can give a talk 29Mar, then I'll be ready for it...if not, then we can arrange something else. In any case, I'll have a chance to check out Valparaiso for a few days and then return to Santiago for a few days before heading down to Punta Arenas on 06Apr. Hope you're having fun, and I'll let you know when I book my flight. I'll probably wait until 27Feb to book it, as this will be a month before my planned departure, so if you have a chance to respond to this email somehow, then I'll look for it. Cheers, Brian B. Frank Eames, Ph.D. Assistant Professor Anatomy & Cell Biology University of Saskatchewan [email protected] From: Kathleen Whitlock <[email protected]> To: Brian Eames <[email protected]> Sent: Tuesday, February 21, 2012 7:48 AM Subject: Re: visit Hi Brian, Let me know you schedule and we can work in a visit to Valparaiso. I have John tentatively scheduled for department seminar the 6th of April (which wouldn't work for you...you are going on different trips?). But we could do a less formal seminar earlier in the week. I am leaving for vacation tomorrow and will be out of touch until March 2. Best wishes Kate









Invitation to give a seminar at Vanderbilt University, USA (September 2013) On Tue, Jul 9, 2013 at 1:07 PM, Ballard, Karie L <[email protected]> wrote: Dr. Eames, I will need the following information from you:

1. Title of seminar talk (as soon as possible for advertisement purposes) 2. CV 3. Biosketch 4. Recent headshot 5. Address where you prefer to have honorarium mailed (please submitoriginal receipts AND credit

card statement for out-of-pocket expense incurred) 6. Cell phone number 7. Your flight preference 8. Name as appears on your ID 9. Any special dietary needs or restrictions

US citizens are required to fill out a W-9 form for taxpayer identification for reported income. Does Canada require such documentation? Please confirm your contact information below. What is your primary and secondary appointment at the University of Saskatchewan? Brian F. Eames, Ph.D. Dept. of Anatomy and Cell Biology 107 Wiggins Rd., Saskatoon, SK, S7N 5E5 email: [email protected] Office: 3D01.18 ph: (306)966-6532 Thank you in advance for this information and please let me know if you have any questions. Karie

From: [email protected] [mailto:[email protected]] On Behalf Of Brian F. Eames Sent: Tuesday, July 09, 2013 1:33 PM To: Ballard, Karie L Subject: Re: Invite to Vandy IG Seminar Hi Karie, Just me at this point, so please let me know what you need from me for this trip. Thanks, Brian On Tue, Jul 9, 2013 at 11:13 AM, Ballard, Karie L <[email protected]> wrote: Hello Dr. Eames, I would like to begin to coordinate your visit to Vanderbilt in September. If you have an assistant, please provide me with the contact information. Thank you and I look forward to hearing from you. Kind Regards, Karie L. Ballard Assistant to Alfred L. George, Jr., MD Grant W. Liddle Professor of Medicine and Pharmacology Chief, Division of Genetic Medicine Director, Institute for Integrative Genomics Director, Physician-Scientist Training Program




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Vanderbilt University Medical Center 529 LH - 2215 Garland Avenue Nashville, TN 37232-0275 Ph: 615-936-2660 Fx: 615-936-2661 [email protected]


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Invitation to give a talk at Canadian Developmental Biology meeting (March 2014) Brian F. Eames <[email protected]>

Mar 4

to Brian

Hi Brian, Is this abstract short enough? In osteoarthritis (OA), sugar-coated proteins (proteoglycans, or PGs) in the cartilage matrix lose their sulfation and decrease in concentration. Sulfated PGs contribute structurally to the compressive resistant force of cartilage matrix, so their loss reduces the ability of cartilage matrix to protect skeletal joint surfaces (such as hips or fingers). While OA progression typically is thought to result directly from mechanical stresses on skeletal joints, my research in skeletal developmental genetics has led to a novel hypothesis. Our lab investigates the idea that, for non-mechanical reasons, loss of sulfated PGs leads to OA progression. The molecular mechanism under study is that sulfated PGs normally modulate the signalling of growth factors in cartilage matrix, and that disruption of this process leads to OA progression. We focus on growth factors in the bone morphogenetic protein (BMP) family, because they have been linked to genetic susceptibility to OA, and PGs regulate BMP signalling. Using transgenic and mutant zebrafish, we find evidence that BMPs regulate features of OA progression and that BMP signalling is altered in PG mutant zebrafish. Brian

On Tue, Feb 25, 2014 at 11:39 AM, Brian Ciruna <[email protected]> wrote: I’ll put you down for a talk then! I’d like to discuss the CFIA issue at the town hall session – I don’t think that everyone is aware of the situation, and what we can/cannot do about it. Would definitely like to hear more about your experiences and thoughts on solutions.... Please send a title and short abstract. I’ll post a schedule shortly. Cheers, Brian On 25/02/14 12:34 PM, "Brian F. Eames" <[email protected]> wrote:

OK sure, the reason that I didn't submit something is that I don't have much new data on my zebrafish work...a combination of CFIA import restrictions and lack of qualified applicants to my lab! If you think it won't make me look bad to give a similar talk as my one two years ago, then I'd love the chance to recruit via a short talk. Thanks, Brian On Tue, Feb 25, 2014 at 10:47 AM, Brian Ciruna <[email protected]> wrote: Hey Brian. You didn’t submit an abstract with registration. Would you like to give a short talk? Good opportunity to recruit a postdoc with fish experience....



http://[email protected]/




B __________ Brian Ciruna Senior Scientist Program in Developmental & Stem Cell Biology The Hospital for Sick Children Peter Gilgan Centre for Research and Learning 686 Bay Street Room 15.9.712 Toronto, ON M5G 0A4 CANADA Phone: (416) 813-7654 ext.302050<tel:%28416%29%20813-7654%20ext.302050> Fax: (416) 813-5252 <tel:%28416%29%20813-5252> email: [email protected]<http://[email protected]>


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Invitation to give a seminar at National Laboratory of Biosciences, Brasil (June 2014) De: [email protected] [mailto:[email protected]] Em nome de Brian F. Eames Enviada em: quarta-feira, 23 de abril de 2014 15:13 Para: José Xavier Neto Assunto: Re: June visit Ola Xav, Tudo bem? I need to buy my airplane ticket from Sao Paulo to Rio very soon. The seats are filling up and getting more expensive. I made a mistake in my email below; I arrive at the Guarulhos airport Sunday 08Jun at 1045a. Where should I go when I arrive? Can your institute provide me lodging during my visit and seminar? And would I leave for Rio on Tuesday, or would you suggest that I stay another day, and leave on Wednesday? As you know, I've already been to Sao Paulo twice, and I don't have anybody else there to visit, so I'd only stay if you wanted to show me something else or if you thought there were more people that I should meet. Muito obrigado, Brian On Fri, Mar 14, 2014 at 10:51 AM, José Xavier Neto <[email protected]> wrote: Hey Brian, São Paulo is a great city, you will see. Can’t wait. Better travel by plane. Tickets can be cheap if you book in advance (TAM, GOL). Looking forward, will check the seminar. WE have two options, our weekly seminar or a special one. Best. Xav







Invitation to give a talk at the Interdisciplinary Approaches to Fish Skeletal Biology meeting in Tavira, Portugal (April 2015) RE: Invitation to participate in Chondrichthyan Skeletal Biology and Evolution session, IAFSB) conference, April 27-30 2015, Algarve, Portugal Inbox x

On Thu, Nov 20, 2014 at 12:56 PM, John Maisey<[email protected]> wrote: Dear Dr. Eames, Apologies for the mass-mailing appearance of this invitation. I am organizing a special session on “Chondrichthyan Skeletal Biology and Evolution”, at the 4th ‘Interdisciplinary Approaches in Fish Skeletal Biology’ (IAFSB) conference, April 27-30 2015, in Tavira, Algarve, Portugal. Please let me know if you would be interested in presenting a paper at this session. Topics on the cartilaginous or the dermal skeleton are welcome, preferably with a developmental and/or evolutionary theme. Also, if you have students, or know of other people who might be interested in presenting a paper, please pass on this information. You can view the preliminary conference announcement at: http://iafsb.org/ I look forward to hearing from you! Regards, John Maisey



http://iafsb.org/



Invitation to give a talk at the Kimmel Symposium at the University of Oregon (June 2015) On Mon, Apr 27, 2015 at 2:20 PM, Cecilia Moens <[email protected]> wrote: Dear Gage, Brian, Johann, Jamie and Tom: Judith and I are looking forward to seeing you in Eugene on June 19th at the Kimmel Symposium. We are currently organizing the symposium schedule and would like to invite each of you to present a 20-minute talk (including questions) in a session at the meeting titled "Craniofacial Development". This will be the third session of the day, after lunch. I look forward to hearing from you, and to seeing you soon in Eugene! Warm regards, Cecilia. Cecilia B. Moens Division of Basic Science Fred Hutchinson Cancer Research Center B2-152, 1100 Fairview Ave. N. Seattle, WA 98109-1024 office: (206) 667-5627 lab: (206) 667-5697



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Invitation to give a seminar at the University of Toronto at Scarborough (March 2016)

Brian Eames <[email protected]>

Re: Talk at UTSC in March 1 message

Blake Richards <[email protected]> Fri, Nov 27, 2015 at 9:36 AM To: [email protected]

Hi Brian, An abstract is not necessary. There's no explicit deadline, but if you could send me your title sooner rather than later that would be great. I'm hoping to post the seminar schedule with titles before the holiday break. I won't need an image until roughly a week before the talk, though. Cheers, Blake

On 15-11-26 11:46 AM, Brian F. Eames wrote: Hi Blake, Yes, I'm very much looking forward to my March visit as well! I guess you don't need an abstract? When would be a good deadline for giving you these things? Thanks, Brian On Tue, Nov 24, 2015 at 7:52 AM, Blake Richards <[email protected]> wrote: Hi Brian, Looking forward to having you here at UTSC in March. We're just trying to finalize our schedule and get it posted. When you get a chance, could you please send me a title for your talk, along with any image that you think would be good for a poster? Thanks, Blake -- Blake Aaron Richards, DPhil Assistant Professor University of Toronto Scarborough Department of Biological Sciences 1265 Military Trail Science Wing, Room SW525 Toronto, ON M1C 1A4 Canada (416) 208-2739



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Appendix G: Materials in support of invited manuscripts Invitation to write a review paper for Frontiers in Genetics (July 2014) Frontiers <[email protected]>

Jul 7

to b.frank

Sylvain Marcellini has sent you a message. Please click 'Reply' to send a direct response Dear Dr Eames, In collaboration with Frontiers in Genetics, section Evolutionary and Population Genetics, we are organizing a Research Topic titled "Evolution of organismal form: from regulatory interactions to developmental processes and biological patterns”, hosted by Sylvain Marcellini, Hector Escriva. As host editor, I would like to encourage you to contribute to this topic. Frontiers, a Swiss open-access publisher, recently partnered with Nature Publishing Group to expand its researcher-driven Open Science platform. Frontiers articles are rigorously peer-reviewed, can be disseminated freely and are widely read by your colleagues and by the broader scientific and medical research communities. The idea behind a research topic is to create an organized, comprehensive collection of several contributions, as well as a forum for discussion and debate. Contributions can be articles describing original research, methods, hypothesis & theory, opinions, etc. We have created a homepage on the Frontiers website (Frontiers in Genetics, section Evolutionary and Population Genetics) where all articles will appear after peer-review and where participants in the topic will be able to hold relevant discussions: http://www.frontiersin.org/Evolutionary_and_Population_Genetics/researchtopics/Evolution_of_organismal_form_f/3100. Frontiers will also compile an e-book, as soon as all contributing articles are published, that can be used in classes, be sent to foundations that fund your research, to journalists and press agencies, or to any number of other organizations. Among others, we have contacted the following authors: Angelika Stollewerk Artyom Kopp Albert Erives Alexander Vargas Alistair McGregor Arielle Cooley Anthony Graham Armin Moczek Bernard Degnan Brian Eames Billie Swalla Claudio Alonso Cristian Cañestro Casey M. Bergman Claude Desplan As such, a manuscript accepted for publication incurs a publishing fee, which varies depending on the article type. Research Topic manuscripts receive a significant discount on publishing fees. Please take a look at this fee table:http://www.frontiersin.org/about/PublishingFees. Once published, your articles will remain free to access for all readers, and will be indexed in PubMed and


http://www.frontiersin.org/Evolutionary_and_Population_Genetics/researchtopics/Evolution_of_organismal_form_f/3100


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other academic archives. As an author in Frontiers, you retain the copyright to your own papers and figures. I would be delighted if you considered participating in this Research Topic. Should you choose to participate, please confirm by sending me a quick email and then your abstract no later than Dec 19, 2014 using the following link:http://www.frontiersin.org/Evolutionary_and_Population_Genetics/researchtopics/Evolution_of_organismal_form_f/3100 Please note that the deadline for manuscript submission is on: Mar 27, 2015 Since I am using the Frontiers system to manage this topic, I would really appreciate if you could also please indicate your decision by clicking on one of the links below. AGREE to Participate http://www.frontiersin.org/AcceptContributor.aspx?activationkey=f2634721-f84f-4dad-ad36-a5d9c17bd89c DECLINE to Participate http://www.frontiersin.org/DeclineContributor.aspx?activationkey=f2634721-f84f-4dad-ad36-a5d9c17bd89c With best regards, Sylvain Marcellini Guest Associate Editor, Evolutionary and Population Genetics www.frontiersin.org http://www.frontiersin.org/Mail/IbarMail.aspx?op=4&msgid=5975299&msg=In




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Invitation to write a review paper for Methods in Cell Biology (July 2014) On Tue, May 12, 2015 at 9:25 AM, Detrich, H William <[email protected]>wrote: Dear Brian, I am writing to follow-up on the invitation that you received to contribute a chapter on “Development of Cartilage and Bone” to MCB: The Zebrafish, 4thedition, Volume 1, Cellular and Developmental Biology. Our favorite model system is advancing rapidly in technical sophistication, and your chapter would be welcomed by our research community. Len, Monte, and I hope that you can participate. Best wishes, Bill H. William Detrich, Ph.D. Professor of Biochemistry and Marine Biology Department of Marine and Environmental Sciences/Dept. of Biology Marine Science Center, Northeastern University 430 Nahant Rd. Nahant, MA 01908 USA Phone: +781.581.7370, x333 Fax: +781.581.6076 Email: [email protected] NU Page: http://www.northeastern.edu/cos/faculty/william-detrich/ Lab Page: http://nuweb.neu.edu/detrichlab/ ICEFISH 2004 Cruise: http://www.icefish.neu.edu HHMI Video on Icefish: http://media.hhmi.org/fittest/birth_death_genes.html




http://www.northeastern.edu/cos/faculty/william-detrich/

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Appendix H: Materials in support of manuscripts that I peer-reviewed Reviewer for article in Frontiers of Endocrinology (April 2012) PERSPECTIVE ARTICLE Front. Endocrinol., 18 July 2012 | doi: 10.3389/fendo.2012.00091

Using transgenic reporters to visualize bone and cartilage signaling during development in vivo Chrissy L. Hammond1* and Enrico Moro2

• 1 Departments of Biochemistry, Physiology and Pharmacology, University of Bristol, Bristol, UK • 2 Department of Biomedical Sciences, University of Padova, Padova, Italy

Green fluorescent protein was first used as a marker of protein expression in vivo 18 years ago, heralding the beginning of what became known as the Green Revolution. Since then, there has been an explosion in the number of transgenic lines in existence, and these transgenic tools are now being applied to skeletal research. Advances in transgenesis are also leading to increasing use of new model organisms for studying skeletogenesis. Such new models include the small teleosts zebrafish and medaka, which due to their optical translucency offer imaging possibilities in the live animals. In this review, we will introduce a number of recent advances in genetic engineering and transgenesis and the new genetic tools that are currently being developed. We will provide examples of how zebrafish and medaka transgenic lines are helping us to understand the behavior of skeletal cells in vivo. Finally, we will discuss future prospects for the application of transgenic technology to skeletal research.

Read Full Text Keywords: bone, cartilage, transgenic, reporter, zebrafish

Citation: Hammond CL and Moro E (2012) Using transgenic reporters to visualize bone and cartilage signaling during development in vivo. Front. Endocrin. 3:91. doi: 10.3389/fendo.2012.00091

Received: 03 April 2012; Accepted: 03 July 2012; Published online: 18 July 2012.

Edited by:

Alison Gartland, The University of Sheffield, UK Reviewed by:

Brian Eames, University of Saskatchewan, Canada Henry Roehl, University of Sheffield, UK Copyright: © 2012 Hammond and Moro. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in other forums, provided the original authors and source are credited and subject to any copyright notices concerning any third-party graphics etc.

*Correspondence: Chrissy L. Hammond, Departments of Biochemistry, Physiology and Pharmacology, Medical Sciences, University of Bristol, University Walk, BS8 1TD Bristol, UK. e-mail: [email protected]


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Reviewer for article in Developmental Biology (July 2012) On Tue, Jul 10, 2012 at 4:35 PM, Developmental Biology <[email protected]>wrote: Ms. No.: DBIO-12-311 Title: Foxa1 and Foxa2 are required for formation of the intervertebral discs Corresponding Author: Dr. Brian D Harfe Authors: Jennifer A Maier, M.S.; YinTing Lo, Dear Dr. Eames, The editor has asked that I remind you that you have agreed to provide timely advice on the suitability of manuscript DBIO-12-311 for publication in Developmental Biology. Your review was due on Jul 05, 2012 and is now overdue 5 days. We realize that you must be as busy as we are, but the other reviewers have returned their comments. The editor would like to make a final decision on the paper this week and would value having your review. Since rapid reviews are an important element of the peer review process, we would appreciate receiving your review as soon as possible, or let us know when we might expect to receive the review. Please submit your review online using the Elsevier Editorial System for Developmental Biology: http://ees.elsevier.com/developmentalbiology/ If you are unable to use the online system, please send your comments via email. If you believe that you have already returned your review, we have not received it and please ask that you resend it at this time. We do apologize for any inconvenience this may cause in advance. Kind regards, Ms. Sandra Tokashiki Journal Manager Developmental Biology



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Reviewer for article in Journal of Experimental Zoology Part B (July 2012) On Sat, Jun 30, 2012 at 11:33 PM, <[email protected]> wrote: > 01-Jul-2012 > JEZ-B-2012-05-0028 > > > Dear Dr. Eames: > > The manuscript entitled Evolution of the vertebrate network forming collagens through expression shuffling between skeletal cell types > > by Aldea, Daniel; Espinoza, Javier; Hanna, Patricia; Torrejon, Marcela; Sachs, Laurent; Buisine, Nicolas; Oulion, Silvan; Escriva, Hector; Marcellini, Sylvain > > has been submitted to the JEZ Part B: Molecular and Developmental Evolution. > > Because of your expertise and experience in the field, we invited you to review this paper on Unable to Display Letter Tag (##date##). > > The manuscript abstract is appended below: > > The emergence of vertebrates is closely associated to the evolution of cartilage and mineralized bone tissues. However, the molecular basis underlying the origin and diversification of the skeletal matrix is still poorly understood. It is therefore crucial to compare chondrocytes and osteoblasts from distinct vertebrate species to asses if they express orthologuous genes coding for structural components of the extracellular matrix found in cartilage and bone, respectively. In this work, we have focused on the evolution of Col8a1, Col8a2, and Col10a1, three genes belonging to the network forming collagen family. Both phylogeny and synteny reveal that these paralogues are vertebrate-specific and derive from two independent duplications in the vertebrate lineage. We reasoned that comparing the expression of the amphibian network forming collagens with data from amniote and teleost species could shed light on the evolution of this family in osteichthyans. Using Xenopus tropicalis as an amphibian representative, we detected Col8a1 transcripts at the level of the embryonic notochord, and a strong expression of Col8a2 in osteoblasts and chondrocytes. Xenopus tropicalis exhibits important differences from teleosts, birds and mammals, such as a significant reduction of Col8a1 and Col10a1 transcript levels in bone tissue. We propose that, in the amphibian lineage, Col8a2 has taken over the expression of its two paralogues. This expression shuffling might have been facilitated by the level of functional redundancy existing between the network-forming collagen members. > > Please advise if you would be willing to accept this review or, if you are unable to do so, suggest an alternate qualified reviewer. If you want to review the paper, please send us a short note and we will then supply the necessary details to enable you to access and review the manuscript online. > > Thank you for your assistance. > > Sincerely, > > Prof. Michel Milinkovitch > Associate Editor > JEZ Part B: Molecular and Developmental Evolution



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Reviewer for article in Zoological Science (April 2013) On Fri, Apr 5, 2013 at 10:24 AM, <[email protected]> wrote: 05-Apr-2013 Dear Dr. Eames: We would appreciate it if you would re-review the following manuscript: Manuscript ID ZS-O-2012-0261.R1 entitled "Molecular cloning and gene expression of Cbfa1 from the mummichog (Fundulus heteroclitus) during embryogenesis" with Dr. Amano as contact author has been submitted to theZoological Science. This is the revised article of Manuscript ID ZS-O-2012-0261, which you kindly reviewed a while ago. The abstract appears at the end of this letter, along with the names of the authors. Please let me know at your earliest convenience if you will be able to accept my request to re-review. If you are unable to review at this time, I would appreciate you recommending another expert reviewer. You may e-mail me with your reply or click the appropriate link at the bottom of the page to automatically register your reply with our online manuscript submission and review system. Once you accept my request to re-review this manuscript, you will be notified via e-mail about how to access Manuscript Central, our online manuscript submission and review system. You will then have access to the manuscript and reviewer instructions in your Reviewer Center. I realize that our expert reviewers greatly contribute to the high standards of the Journal, and I thank you for your present and/or future participation. Sincerely, Prof. Shigeru Kuratani Reviewing Editor, Zoological Science [email protected] Agreed: http://mc.manuscriptcentral.com/zs?URL_MASK=ZDDkt58Xd5nJTR9sdnkJ If you cannot use the automatic response function, copy & paste the entire URL to your Web browser's URL box or just reply to the Reviewing Editor. MANUSCRIPT DETAILS TITLE: Molecular cloning and gene expression of Cbfa1 from the mummichog (Fundulus heteroclitus) during embryogenesis AUTHORS: Amano, Haruna; Mochida, Kazuhiko; Onduka, Toshimitsu; Fujii, Kazunori ABSTRACT: In our previous study, we clarified the toxicity of 2,2’-diphridyldisulfide [(PS)2], one of the photodegradation products of a metal pyrithione which is used as an alternative antifouling paint biocides to organotin compounds in Japan. In early life stage toxicity tests, the mummichog, Fundulus heteroclitus, was exposed to (PS)2, and the hatched larvae subsequently displayed notochord undulations and skeletal deformities (Mochida et al., 2012). Cbfa1, a transcription factor of the runt family, is a key regulator in skeletal development in mammals. In the present study, we cloned two Cbfa1 cDNAs (typeI and typeII) from mummichog embryos. The deduced amino acid sequences of typeI and typeII, including the runt domain, contained an open reading frame encoding 450 and 464 amino acid residues, respectively. The derived amino acid sequence of Fundulus typeI showed the highest identity (94.6%) with medaka Cbfa1, and Fundulus typeII showed 93.8% homology with Takifugu Runx2 type II. The expression level of Cbfa1 mRNA in the early stage series was measured using a Real-Time quantitative PCR assay. Expression level tended to increase in both the blastula-gastrula stage and the retinal pigmentation stage. To examine the effect of toxic compounds on skeletal formation, mummichog embryos in the late blastula to retinal pigmentation stage were exposed to (PS)2. After exposure to (PS)2 for a week, the expression level of Cbfa1 mRNA was unchanged. These results suggest that there is no inhibition of Cbfa1 gene expression due to (PS)2 exposure.




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Reviewer for article in PLoS ONE (June 2013) On Tue, Jun 25, 2013 at 10:12 PM, PLOS ONE <[email protected]> wrote: PONE-D-13-23472 Disappearing scales in carps: Re-visiting Kirpichnikov's model on the genetics of scale pattern formation PLOS ONE Dear Dr Eames, Thank you for agreeing to submit a review of PLOS ONE manuscript "Disappearing scales in carps: Re-visiting Kirpichnikov's model on the genetics of scale pattern formation." You agreed to review the manuscript on Jun 16 2013 5:37PM and your completed review is now due. We would be grateful if you could submit your review now athttp://pone.edmgr.com/. Please be aware that the Academic Editor may proceed with a decision if your review is late. If you would like step-by-step instructions for submitting your review, please see this 2-minute video tutorial:http://blogs.plos.org/everyone/2011/05/10/how-to-submit-your-review/ To download the paper now, please click this link:http://PONE.edmgr.com/l.asp?i=6182231&l=RGTK72IE To submit your review, please follow this link: http://PONE.edmgr.com/l.asp?i=6182232&l=F1EROFIT Kind regards, PLOS ONE [email protected]



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Reviewer for article in Acta Biomaterialia (June 2014) On Sun, Jun 8, 2014 at 7:26 PM, Marc Bohner <[email protected]>wrote: Ref: AB-13-2401R2 Title: Localization and Role of Polyphosphates and Alkaline Phosphatase in Apatite Biomineralization of Elasmobranch Tesserae Article Type: BIOMIN 12 Dear Dr. Brian F. Eames, Thank you once again for reviewing the above-referenced paper. With your help the following final decision was reached: Accept We appreciate your time and effort in reviewing this paper and greatly value your assistance as a reviewer for Acta Biomaterialia. Yours sincerely, Marc Bohner, Ph.D. Editor William R. Wagner, Ph.D. Editor-in-Chief





Reviewer for article in Connective Tissue Research (December 2014)


FW: Thank you for submitting your review of Manuscript ID GCTS-2014-0134 for Connective Tissue Research 1 message

[email protected] <[email protected]> Mon, Nov 30, 2015 at 8:34 AM To: [email protected]

10-Dec-2014 Dear Dr Brian Eames: Thank you for reviewing the above manuscript, entitled "Novel use of zebrafish as a model for skeletal tissue imaging" for Connective Tissue Research. We greatly appreciate the voluntary contribution that each reviewer gives to the Journal. We hope that we may continue to seek your assistance with the refereeing process for Connective Tissue Research, and hope also to receive your own research papers that are appropriate to our aims and scope. If it wouldn't be too much trouble, will you kindly add, check or correct your research keywords held in your Connective Tissue Research Manuscript Central account at https://mc.manuscriptcentral.com/gcts. This is the most important part of your account, as it helps us to only send papers which are applicable to your field. Sincerely, Dr Kozloff Associate Editor, Connective Tissue Research [email protected]


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Reviewer for article in Frontiers in Genetics (May 2015) • About • Submit • Journals • Research Topics

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Brian Frank Eames

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Molecular footprinting of skeletal tissues in the catshark Scyliorhinus canicula and the clawed frog Xenopus tropicalis identifies conserved and derived features of vertebrate calcification

Sebastien Enault, David Nicolas Muñoz, Willian T. A. F. Silva, Véronique Borday-Birraux, Morgane BONADE, Silvan

OULION,Stéphanie Ventéo, Sylvain Marcellini* and Melanie Debiais-Thibaud Original Research, Front. Genet. - Evolutionary and Population Genetics Submitted on: 30 Apr 2015, Edited by: Naiara Rodriguez-Ezpeleta Research Topic: Evolution of organismal form: from regulatory interactions to developmental processes and

biological patterns Keywords: Fibrillar Collagens, Vertebrate skeletogenesis, Bone, Cartilage, Scyliorhinus canicula, Xenopus tropicalis NO ACTION IS REQUIRED FROM YOU

This manuscript has been accepted for publication.

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24 Aug 2015 Article accepted for publication.

21 Aug 2015 Associate Editor Naiara Rodriguez-Ezpeleta has provisionally accepted the manuscript.

10 Aug 2015 You finalized your review.

08 Aug 2015 Corresponding Author Sylvain Marcellini re-submitted manuscript. Corresponding Author Sylvain Marcellini posted new comments.

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31 Jul 2015 Editorial Office reminded you to respond and/or finalize your review.

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24 Jul 2015 Corresponding Author Sylvain Marcellini posted new comments. Corresponding Author Sylvain Marcellini posted new comments. Corresponding Author Sylvain Marcellini re-submitted manuscript.

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26 May 2015 Interactive review forum activated.

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11 May 2015 You accepted to review this article. You were invited to review this article.

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Reviewer for article in EvoDevo (August 2015)


Thank you for your review for EvoDevo 1 message

EvoDevo Editorial Office <[email protected]> Mon, Nov 30, 2015 at 10:42 AM Reply-To: EvoDevo Editorial Office <[email protected]> To: brian eames <[email protected]>

EVOD-D-15-00013 Species-specific modifications of mandible shape reveal independent mechanisms for growth and initiation of the coronoid process EvoDevo Dear Dr. eames, Thank you very much for your review of manuscript EVOD-D-15-00013, 'Species-specific modifications of mandible shape reveal independent mechanisms for growth and initiation of the coronoid process'. We greatly appreciate your assistance. Best wishes, Mark Martindale EvoDevo http://www.evodevojournal.com


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Reviewer for article in Developmental Biology (August 2015)


Developmental Biology Review Completed: DBIO-12-311 1 message

Developmental Biology <[email protected]> Sun, Nov 29, 2015 at 3:36 AM To: [email protected]

Ms. No.: DBIO-12-311 Title: Foxa1 and Foxa2 are required for formation of the intervertebral discs Corresponding Author: Dr. Brian D Harfe Authors: Jennifer A Maier, M.S.; YinTing Lo; Dear Dr. Eames, This is to confirm that we have received your review for the manuscript referenced above. We appreciate the time and expertise that you have contributed to the peer review process for Developmental Biology. Should you need to access your review comments, please log onto the Elsevier Editorial System at: http://ees.elsevier.com/developmentalbiology/ Your cooperation is greatly appreciated, and we hope that you will consider Developmental Biology as a potential journal for the publication of your own work in the future. I hope you enjoyed having access to references, abstracts, and full-text articles in Scopus and ScienceDirect for 30 days. If you have not yet activated your access, you can use your EES login details to register at www.scopus.com/reviewer up to 6 months after you accepted the invitation to review. Kind regards, Richard M. Harland Editor Developmental Biology


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Reviewer for article in Developmental Dynamics (April 2016)

Thank you for submitting your review of Manuscript ID DVDY-16-0044 for the Developmental Dynamics Inbox x

[email protected] 2:45 PM (4 minutes ago)

to b.frank

15-Apr-2016 Dear Reviewer, Thank you very much for reviewing manuscript # DVDY-16-0044 entitled "Maxillo-mandibular cleft signals prevent the syngnathic development of avian upper and lower jaws" for the Developmental Dynamics. On behalf of the Editors of Developmental Dynamics, we appreciate the voluntary contribution that each reviewer makes to the Journal. We thank you for your participation in the online review process and hope that we may call upon you again to review future manuscripts. Sincerely, Paul Trainor Developmental Dynamics




Reviewer for article in Journal of Visualized Experiments (June 2016) Conversation opened. 1 read message.

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JoVE Peer Review: Thank you for your review of: (JoVE54811R2) Building Finite Element models to investigate zebrafish jaw biomechanics Inbox x

JoVE Editorial <[email protected]>

2:38 PM (3 minutes ago)

to Brian

Dear Dr. Eames, We have received your review for "Building Finite Element models to investigate zebrafish jaw biomechanics" and wanted to sincerely thank you for your time and effort as part of the peer review process. We appreciate your perspective and expertise regarding this methodology and hope to work with you again in the future. To see our recently published video articles, check out This Month in JoVE. Best Wishes, Peer Review JoVE 1 Alewife Center, Suite 200, Cambridge, MA 02140 tel: 617-401-7717

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Appendix I: Materials in support of fellowships/grants that I peer reviewed Reviewer for fellowship for Graduate Women in Science (April 2014) Brian F. Eames <[email protected]>

Apr 9

to Julie

Hi Julie, Please find attached my review of this applicant. Best, Brian

On Mon, Mar 24, 2014 at 2:36 PM, Julie Nemecek <[email protected]>wrote:

First and foremost thank you for agreeing to review the SDE/GWISFellowships. I am attaching the application and letters of recommendation for the applicant in a single PDF file as well as the Evaluation Rubric. As indicated in my previous email, each proposal is to be evaluated on a point system. Although no written comments are required, they will be the only form of feedback for the applicants and thus would be quite helpful. Applicants learn more from written feedback than an overall score.

Also, please note that each application should be evaluated with the level of the applicant in mind. We accept applications from 1st year graduate students through junior faculty levels. Therefore, first year graduate students would not be expected to have extensive preliminary results; whereas, junior faculty should provide preliminary results. In addition, please keep in mind the funds cannot be used for: tuition, child care, travel to professional meetings or to begin a new appointment, administrative overhead or indirect costs, personal computers, living allowances, or equipment of general use. Professional travel costs, however, are allowable. These would include such things as travel and subsistence while performing field studies or travel to another laboratory for collaborative research. These costs must be clearly justified in the proposal and integral to the research design. Although some applicants might have requested funds for some of the prohibited categories, only research-related expenses would be funded if they become finalists.

Finally, the maximum award that can be requested per applicant is $10,000. The number of awards granted will be determined by available funds and by the reviewer scores. For more information on the SDE/GWIS Fellowshipsplease refer to www.gwis.org.

Please return the completed evaluation forms and comments to me by April 15th. You may send them via email to the following address:[email protected] If you have any questions, please do not hesitate to email me

On Thu, Mar 20, 2014 at 3:10 AM, Brian F. Eames <[email protected]> wrote: sorry at a meeting now can probably help

On Wed, Mar 19, 2014 at 7:27 PM, Julie Nemecek<[email protected]> wrote: My name is Julie Nemecek and I am serving on the National FellowshipsCommittee for Sigma Delta Epsilon, Graduate Women in Science (www.gwis.org). I am emailing you to ask if you would be willing to review a brief proposal related to your area of expertise entitled, “Elucidating the role of HA/Hapln1a ECM during skeletal morphogenesis."

The review process is not very time consuming, as applications are short. For each application there is an application form, a 200-word abstract, a 4-page proposal, two letters of recommendation, budget and



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justification. Each proposal is evaluated on a point system. We will provide you a rubric. Although no written comments are required, they will be theonly form of feedback for the applicants and thus would be quite helpful.

If you are unable to review the proposal at this time, I would greatly appreciate any suggestions you may have for reviewers. Alternatively, if you have advanced graduate students or postdocs who are available to review the proposal, they are eligible for reviewing proposals. If you have any questions, please do not hesitate to email me.

Sincerely, Julie Nemecek




Reviewer for operating grant for Medical Research Council (August 2014) [email protected] via usask.ca

Aug 7

to b.frank

This confirms that a Peer Review document submitted by you has been routed to MRC. Title: Function of CXCR2 signalling in the articular cartilage Funders Reference: MR/M012182/1 Research Council contact: : : Date and time of action: 08 Aug 2014 00:36 You may review the form by visiting this site: https://je-s.rcuk.ac.uk/Jes2WebLoginSite/Login.aspx Regards Je-S Helpdesk Tel: +44 (0) 1793 44 4164 e-mail: [email protected] Staffed Monday to Friday 9am - 5pm UK time (Excluding Bank Holidays and Other Holidays) Je-S Link: https://je-s.rcuk.ac.uk Out of hours: Please leave a Voice Mail message


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Reviewer for operating grant for NSERC Discovery Grants (December 2014)

NSERC - External Reviewer Report / CRSNG – rapport d’évaluateur externe science x

[email protected] via usask.ca

12/12/14

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Dear Dr. Eames:

This email contains your password to access the NSERC extranet site for external reviewers. You should have already received an email from NSERCthat contains your username. If you have not received this email, please contact the On-line Services Helpdesk at [email protected].

Your Password is: P@ss7385

To access the site, go to https://influence.nserc-crsng.gc.ca/100000/1501/L013/P002.aspx.

You may, at any time, change your password by selecting Change Passwordfrom the menu bar in the Extranet.

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Le présent message vise à vous fournir votre mot de passe pour accéder au site extranet d’évaluateurs externes. Vous devriez avoir reçu votre nom d’utilisateur dans un courriel précédent. Si vous n’avez pas reçu ce courriel, veuillez communiquer avec le Service de dépannage des services électroniques à [email protected].

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NSERC External Reviewer Report - Discovery Grant / Rapport d’évaluateur externe du CRSNG – subvention à la découverte Inbox x

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Dear Dr. Eames:

Thank you for agreeing to review a Natural Sciences and Engineering Research Council of Canada (NSERC) Discovery Grant proposal.

As a previous user of an NSERC extranet, please use your existing account information to login.

Your Username is: [email protected]

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Category 4: Research & scholarly work Statement of the nature of the candidate’s research, future research plans, and scholarly work I have initiated complementary avenues of health-related and basic research in my lab, and also through nascent collaborations with UofS colleagues, which are truly unique in the world. My health-related research has three independent (yet complementary) lines of study, all of which are related to osteoarthritis (OA), a disease of articular cartilage which affects productivity and quality of life for about 50% Canadians over 60 years of age. Especially since OA appears late in life, and the average age of humans is increasing dramatically, this fundable line of research has good long-term prospects for my career. The three lines of OA-related study in my lab were funded by SHRF and CIHR, focussing on different aspects of the disease. In the first, we seek to improve the diagnosis of OA by employing novel synchrotron imaging techniques. In the second, we aim to identify potential therapeutic targets for limiting the progression of OA by uncovering molecular mechanisms of OA progression. In the third, we develop novel treatment methods for OA, focussing on tissue engineering. After I detail these health-related research programs below, I outline my lab’s NSERC-funded research program on skeletal evolution. Diagnosing OA. A major problem with managing the health of articular cartilage (cartilage at skeletal joints) is the lack of imaging modalities that can visualize well cartilage, so my lab is developing synchrotron-based methods that may improve cartilage diagnoses. This clinically-relevant project also has established my lab as a major synchrotron user, taking advantage of the CLS on campus here. In visualizing cartilage health using synchrotron light, we do things that no one else in the world does. Specifically, I used the RUHF grant to initiate a cross-disciplinary project on human articular cartilage with many UofS collaborators. Dr. Bill Dust in Orthopaedic Surgery provides OA samples from his patients; Dr. Sheldon Wiebe in Medical Imaging helps analyze these samples by MRI (current gold-standard for clinical visualization of cartilage); Dr. Dean Chapman in ACB helps image the samples at the BMIT beamline at CLS, using phase-contrast imaging (PCI); and Dr. David Cooper in ACB helps analyze the images quantitatively. Importantly, our department’s Body Bequeathal Program provided critical control (non-OA) samples for this study. Our preliminary results, generated by my MSc student Suranjan Bairagi, MD, demonstrate the potential advantages of using PCI to diagnose OA earlier in disease progression. Suranjan is beginning to write up those results for publication. My lab also investigates the utility of another synchrotron-based imaging technique (X-ray fluorescence) in diagnosing OA. Again, this multi-disciplinary project involves UofS collaborators: Drs. Graham George and Ingrid Pickering of Geology provide technical expertise; and Dr. Mark Hackett (their postdoc) and I generated and analyzed the data at the VESPERS and SXRMB beamlines at CLS, along with other beamlines in Chicago and Stanford. This work was quite successful, and my MSc student Devin Brown has expanded applications of this technique to show that it is also reflects cartilage function in zebrafish and chick embryonic cartilage, as well as in human articular cartilage. Revealing causes of OA. To increase understanding of the molecular etiology of OA, I used my SHRF Establishment Grant and CIHR New Investigator Award to initiate a project using zebrafish as a model organism. Recognizing the power of zebrafish genetics and developmental biology in revealing the functions of genes related to human disease, I established and supervise a modern zebrafish facility at LASU in the College of Medicine. Unfortunately, restrictive CFIA regulations took effect January 2013, severely limiting my lab’s ability to import crucial zebrafish strains that have mutations or transgenes allowing us to analyze genes that may regulate progression of OA symptoms. As a result, our success in this line of research has been well below my standards and expectations. In May 2014, however, I was the first Canadian basic researcher to obtain CFIA compliance for zebrafish imports, which has increased lab productivity in the past two years. My lab




(mostly summer undergraduate students) has generated preliminary data on a potentially novel molecular mechanism underlying OA disease progression, and we currently are writing these data up for publication. Treating OA. Regarding OA treatment, my lab has joined another multi-disciplinary effort on campus to develop cartilage tissue engineering strategies for the replacement of damaged articular cartilage. Prior to my arrival at UofS, Dr. Daniel Chen of Engineering had organized members of his college, and also those in the College of Medicine, into a new Tissue Engineering Research Group, funded by SHRF. Initially working with Dr. Bill Kulyk in ACB, I helped to renew the grant and took over the cartilage tissue engineering portion. We use novel 3D bioprinting technology to construct a hybrid design of biodegradable polymers and cells, the combination of which mimics both the mechanical and biological properties of articular cartilage. We are one of only a few labs in the world pursuing this line of work, which has been very successful, producing three publications in the past year and receiving CIHR bridge funding last year. For this work, I am co-supervising with Dr. Chen two Biomedical Engineering PhD students (Adeola Olubamiji and Fu You) and one MSc student (Farhana Yasmin); I also supervise one postdoc (Zohreh Izadifar). Data generated on this project supports another CIHR project grant application aimed at further characterizing the success of our engineering approach in large animal models, especially using synchrotron imaging techniques developed above. Skeletal evolution. Apart from health-related research ongoing in my lab, I have a strong research program in evolutionary biology funded by an NSERC Discovery Grant. Broadly, my lab studies evolution of skeletal tissues, analyzing them from their gross morphological features down to their molecular characteristics. The skeleton is a useful subject of evolutionary study, because skeletal tissues have varied a lot among vertebrates, they are easy to study histologically and molecularly, and long-term changes to the vertebrate skeleton can be observed in the fossil record. Specifically, my NSERC grant seeks to uncover molecular details of the evolutionary process by comparing the genes expressed by homologous skeletal tissues across different animal lineages. This approach of my lab is unique in the world, as it seeks to uncover the evolution of cell differentiation, whereas most evolutionary studies focus on the evolution of form, or morphology. Currently, my lab is establishing cutting-edge techniques to enable comparisons of gene expression in homologous skeletal cells. Recently, we have designed a protocol using laser-capture microdissection specifically to analyze small groups of skeletal cells, led by my PhD student Patsy Gómez-Picos. RNA isolated from this technique is then analyzed by RNAseq to catalogue all expressed genes in those cells. The datasets of gene expression that result from RNAseq are huge (~5Gb data), so I initiated another multi-disciplinary effort to facilitate these analyses. In collaboration with Dr. Ian McQuillan of Computer Science, we co-supervise an MSc student, Katie Ovens, in the Computer Science grad program. She performs the bioinformatics required to compare how the complex molecular program of cell differentiation has evolved among homologous cell types. Another focus of evolutionary study in the lab is skeletal tissues in sharks and skates (so-called cartilaginous fishes), led by my MSc student Joseph (Oghenevwogaga) Atake. We are describing a bone-like tissue in these cartilaginous fishes, which might have an interesting story to tell on the evolution of skeletal cell differentiation. Evidence pertaining to research and scholarly work According to Google Scholar, my 30 publications have been cited 1295 times, and I have an h-index of 17, meaning that I have 17 papers that have been cited at least 17 times. Since joining the UofS (and I only include here the work that I completed on these papers while I was a UofS faculty), I have published fourteen papers in leading journals. I wrote up the results and a manuscript for some of my postdoctoral work from Oregon, which was accepted at BMC Developmental Biology (5yr IF=2.8). Also, I edited the manuscript that included data generated during my postdoctoral work at




UCSF, and this was accepted at Developmental Biology (5yr IF=3.8). I listed my UofS address for two other papers that were accepted after I began my work at UofS; one was published in BMC Evolutionary Biology (5yr IF=4.4), and the other appeared in Development (5yr IF=6.9). Currently, ten publications represent work done at my lab at UofS. On five of these, I am listed as senior author, indicating the central role of my lab in publishing that project. Four papers relate to the zebrafish (and imaging) research outlined above (published in Biochemistry (2015 IF=3.0), Methods in Cell Biology (2015 IF=1.4), Zebrafish (2015 IF=1.9), and Frontiers in Physiology (2015 IF=3.9)). Four papers relate to the tissue engineering (and imaging) research outlined above (published in Tissue Engineering Part C (2015 IF=4.6), Biofabrication (2015 IF=4.3), Journal of Synchrotron Radiation (2015 IF=2.7), and ACS Biomaterials Science & Engineering (no IF yet)). Two papers relate to the evolutionary research outlined above (published in Molecular Biology and Evolution (2015 IF=9.1) and Frontiers in Genetics (no IF yet)). Two of these papers were not published at the time of application, so letters from the journals indicating their acceptance are provided in Appendix J (p129-131). In total, these publications reflect the growing research productivity of my lab, since the majority of these were published in the past year. Evidence of research funding Since my appointment at UofS four and a half years ago, I have been fortunate to receive nine competitive grants totalling almost $3 million. In my first six months, I secured a SHRF Establishment Grant ($120,000 over 3 years). In the following year, I was awarded an RUH Foundation Grant ($25,000 over 1 year), an NSERC Discovery Grant ($205,000 over 5 years), and a SHRF Research Group Grant ($750,000 over 3 years—1 of 10 Co-applicants). In my third year, I received a CIHR New Investigator Salary Award ($300,000 over 5 years) and an NSERC Research Tools and Instruments grant ($61,736—1 of 3 Co-applicants). Last year, I obtained a CFI grant ($1,259,321—1 of 2 Co-applicants) and CIHR project grant bridge funding ($100,000 over 1 year—1 of 2 Co-applicants). This year, I received a Canada Council for the Arts grant ($50,200 over 1 year—1 of 2 Co-applicants) and have two CIHR operating grants under review. Other relevant evidence for the purpose of establishing research direction, accomplishment, & momentum Since starting to work at UofS four and a half years ago, I worked hard to establish the necessary infrastructure, funding, and personnel that I will need to be a successful research faculty. The fact that I have received a departmental (and University) merit increase every year as a UofS faculty offers tangible evidence supporting my accomplishment as a young faculty. I took advantage of the synchrotron, a truly unique local resource, receiving over 150 shifts of beamtime at four different beamlines, allowing me to incorporate these novel techniques into my research programs. When I present these data at international meetings, the reception that I get from colleagues in my field is amazing, since they’ve never even heard of these fascinating techniques. While I have plenty of independent research projects, I relish my interactions with colleagues from many disciplines. I feel that these collaborations allow me to grow as a researcher and scholar, since they offer me inroads into complementary fields of research. Also, my clinical collaborators, such as Dr. Bill Dust in Orthopaedic Surgery at the Royal University Hospital, help ground my biomedical research towards the clinic. With the infrastructure in place, I am building upon my grant success by applying for two CIHR operating grants. One will carry on my SHRF Establishment Grant work using zebrafish to reveal molecular mechanisms of OA progression. The other will carry on my SHRF Research Group work establishing in vivo models of cartilage tissue engineering. Finally, a big challenge in establishing research momentum is finding the right lab personnel. In the past few years, I have recruited quality students and research associates to ensure the lab’s productivity. Three years ago, I hired Tuanjie Chang, PhD, who serves as my lab manager and also helps to coordinate the tissue engineering and molecular genetic experiments. Within the next year, I plan to graduate two MSc




students (Devin and Katie) and one PhD student (Adeola), while one MSc student (Joseph) and two PhD students (Patsy and Fu) should graduate the following year. A new PhD student (Rafaela Grecco Machado) arrives in a few weeks, and I expect to hire one postdoc and two more graduate students in the next two years. With all this in place, I expect the coming five years to continue the productivity of this past year, anticipating at least four publications per year. Other information on the candidate’s contribution to joint publications & original grants Most of my twelve publications were collaborative efforts, but my lab played a central role in their collective success, evidenced by the fact that I was listed as senior author on five of them. As described above, the first four publications since I started at the UofS are based upon experiments completed in my previous laboratories. For one of those publications (Eames et al, 2013—50% overall effort), I did a significant amount of the work, compiling the data and writing the whole manuscript, while I was a UofS faculty. Another merely included some of my data and editing (Yu et al, 2014—5% overall effort). I had significant contributions to the other two publications (Eames et al, 2012—75% effort; Huycke et al, 2013—25% effort), but most of those contributions were completed before starting at UofS. My lab had a minor influence (<10% contribution) on only two (Hanwell et al, 2016 and Edmunds et al, 2016) of the eight other collaborative papers. Two of the remaining six were authored by Eames lab members only. The rest were collaborations with UofS labs (Chen, Pickering, and George), but Eames lab members occupied first and/or senior author positions, reflecting our extensive contributions. Many of the grants awarded to me since becoming a UofS faculty were 100% conceived and written by me, including the SHRF Establishment Grant, NSERC Discovery Grant, and CIHR-RPP New Investigator Award. I conceived and wrote about 90% of the RUH Foundation grant and CIHR project grant bridge fund, depending upon collaborators for technical details of synchrotron imaging, mechanical testing, and 3D-bioprinting. I worked equally with Dr. Kulyk on writing our section of the SHRF-funded Tissue Engineering Research Grant, which represented ~20% of the overall grant. I conceived and wrote roughly 20% of the NSERC RTI grant, the rest being done by Drs. Cooper and Boughner. I contributed about 30% of the concepts and writing of the large CFI grant that I received with Dr. Vizeacoumar. I shared equally with Mr. Gauthier in generating concepts for which we received the CCA grant. The CIHR operating grant applications for zebrafish and cartilage tissue engineering represent 100% and 90% my concepts and writing, respectively. Finally, all of my student’s scholarships are 100% my concepts, and I heavily edit their writing. “Tenure talk” An overview of my lab’s health-related research was provided in the form of a “tenure talk” on 25May2016. The seminar notice (Appendix K, p133) and audience feedback (Appendix L, p134-135) are provided below.




Appendix J: Accepted manuscript documentation Manuscript accepted in ACS Biomaterials Science & Engineering (June 2016)

转发: Chen, Xiongbiao ab-2016-00258a.R1 - Manuscript Accepted 20-Jun-2016 Inbox x

You, Fu <[email protected]>

Jun 21

to Ning, Ming, Brian, Xia, Daniel

Hi all,

The manscript entitled “3D Printing of Porous Cell-laden Hydrogel Constructs for Potential Applications in Cartilage Tissue Engineering" was accepted for publication in ACS Biomaterials Science & Engineering. Thank you for your help!

Fu

发件人: Chen, Daniel 发送时间: Tuesday, June 21, 2016 9:03 AM 收件人: You, Fu 主题: Fw: Chen, Xiongbiao ab-2016-00258a.R1 - Manuscript Accepted 20-Jun-2016

Fu, Please see the message below. Congratulations on your leading role in this article! PLease let the other authors know this decision. Thanks. Daniel ________________________________________ From: onbehalfof+radisic-office+biomaterials.acs.org@manuscriptcentral.com <onbehalfof+radisic-




mailto:onbehalfof%2Bradisic-office%[email protected]




[email protected]> on behalf of [email protected]<[email protected]> Sent: Monday, June 20, 2016 10:31 AM To: Chen, Daniel Subject: Chen, Xiongbiao ab-2016-00258a.R1 - Manuscript Accepted 20-Jun-2016 20-Jun-2016 Journal: ACS Biomaterials Science & Engineering Manuscript ID: ab-2016-00258a.R1 Title: "3D Printing of Porous Cell-laden Hydrogel Constructs for Potential Applications in Cartilage Tissue Engineering" Author(s): You, Fu; Wu, Xia; Zhu, Ning; Lei, Ming; Eames, Brian; Chen, Xiongbiao Dear Prof. Chen: We are pleased to inform you that your manuscript has been accepted for publication in ACS Biomaterials Science & Engineering. Your manuscript has been forwarded to the ACS Publications office. You will be contacted in the near future by the ACS Journal Publishing Staff regarding the page proofs for your manuscript. Please note: An ACS ID is required to access proof materials. If you do not have an ACS ID, you will be prompted to create one or go to http://www.acschemworx.org to register. After you approve your page proofs, your manuscript will be published on the Web in approximately 48 hours. In view of this fast publication time, it is important to review your page proofs carefully. Once a manuscript appears on the Web it is considered published. Any change to the manuscript once it appears on the Web will need to be submitted to the journal office as additions or corrections. Thank you for selecting ACS Biomaterials Science & Engineering as your research publication medium. Sincerely, Prof. Milica Radisic Associate Editor ACS Biomaterials Science & Engineering Fax: 202-513-8061 Editor Email: [email protected] ********************* Confirmation of your selection for “Just Accepted” publication: YES, I agree that my accepted manuscript may be published on the ACS Web site as a 'Just Accepted' manuscript. ********************* ------------ PLEASE NOTE: This email message, including any attachments, contains confidential information related to peer review and is intended solely for the personal use of the recipient(s) named above. No part of this communication or any related attachments may be shared with or disclosed to any third party or organization without the explicit prior written consent of the journal Editor and ACS. If the reader of this message is not the intended recipient or is not responsible for delivering it to the intended recipient, you have received this communication in error. Please notify the sender immediately by e-mail, and delete the original message. Thank you. Manuscript accepted in Frontiers in Physiology (June 2016)






http://www.acschemworx.org/

tel:202-513-8061




Frontiers: Congratulations! Your manuscript is accepted Inbox x

Frontiers Physiology Editorial Office <[email protected]>

Jun 21

to me

Dear Dr Eames, Congratulations on the acceptance of your manuscript. It's being prepared for production and is already available online in provisional form. Fully populated profiles receive 4X more profile views and 6X more publication views. Maximise your readership and impact by adding your publications, profile picture and biography to your profile now: http://loop.frontiersin.org/people/me/?utm_source=WFPOFAut&utm_medium=Email&utm_campaign=WF4.8cE-1 Journal: Frontiers in Physiology, section Craniofacial Biology Article type: Original Research Title: MicroRNA Profiling During Craniofacial Development: Potential Roles for Mir23b and Mir133b Authors: Hai-Lei Ding,Joan E. Hooper,Peter Batzel,Brian F. Eames,John H. Postlethwait,Kristin B. Artinger,David E. Clouthier Manuscript ID: 180223 Edited by: Thimios Mitsiadis You will be contacted once the proof is ready for checking. Best Regards, Your Frontiers in Physiology team Frontiers | Editorial Office - Collaborative Peer Review Team www.frontiersin.org EPFL Innovation Square, Building I, Lausanne, Switzerland Office T 41 21 510 17 25 For technical issues, please contact our IT Helpdesk ([email protected]) or visit our Frontiers Help Center (frontiers.zendesk.com) http://www.frontiersin.org/Registration/Register.aspx


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Appendix K: “Tenure talk” notice




Appendix L: “Tenure talk” audience feedback


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Category 6: Contributions to the administration or extension responsibilities Administration I have active administrative roles at departmental, college, and university levels. For the Anatomy & Cell Biology (ACB) department, I have reviewed graduate scholarship applications (2013, 2014), and I am on the Advocacy Committee, which helps to recruit students to declare a major in our department through such events as having a booth at the Experience US student recruitment drive. Also, I re-designed with Corinne Howells the undergraduate portion of the ACB website in 2013. I sit on the ACB’s Altschul and Munkasci Trust Funds Committee, which funds research symposia and invited lectures. For the College of Medicine (CoM), I served on the PRISM (Molecular Design) faculty search committee and serve as a judge at both the Life & Health Sciences and College of Medicine Research Days. I established and supervise the fish facility in CoM’s Lab Animal Services Unit (LASU). I represent the CoM’s Imaging & Development research cluster on two committees. The Animal Use Committee overviews best practices for animal use by researchers at LASU. The Research Operations Committee works with Lisa Kalynchuk of the Office of Interdisciplinary Health Research to standardize CoM policies on such items as space and equipment usage among research clusters. Given that her office has replaced the Council of Health Sciences Deans, this committee now acts at the University level. Also at the University level, I was a member of the 2014 NSERC Discovery Grant preparation panel, and I serve as an internal NSERC and CIHR reviewer. Finally, I served as a Dean’s designate for a PhD defense in Toxicology. Extension In 2014, I co-ordinated the visit of an external speaker, Dr. Gage Crump, for a Biomedical Sciences seminar. Gage is an Associate Professor at the University of Southern California’s Stem Cell and Regenerative Medicine Program, and his talk was well-attended. I received funding from both the Biomedical Sciences program and the ACB department to sponsor his visit. Gage had a full two days of meetings with members of the Colleges of Medicine and Arts & Sciences; he also toured the CLS, meeting with beamline scientists there. Obviously, such a visit from a distinguished scientist enriches the research environment at the UofS and also advertises well the research potential of our UofS to foreign institutions.




Category 7: Public service & contribution to academic & professional bodies Service to academic & professional bodies I have been a member of the Society for Developmental Biology since 1998, and I present research data every year at their annual meeting. I have organized a symposium and served as the on-site coordinator at annual meetings for this society, but not since I joined UofS. I am also a member of the Society for Craniofacial Genetics and Developmental Biology. Other contributions to academic and professional bodies include membership in Orthopaedic Research Society and website development for the Zebrafish Information Network (ZFIN), but these also occurred prior to my arrival at the UofS. The major contribution to professional bodies that I have given since becoming faculty at UofS is as a member of the Canadian Orthopaedic Foundation’s Research Committee. Since 2015, I’ve been reviewing clinical research grants related to therapies for musculoskeletal maladies. Our committee coordinates these results in awarding two grants from the COF per year to promote novel, translational research that helps orthopaedic patients. Public service & outreach I reach out to the public by maintaining a website on the findings and activities of my research lab, along with my teaching activities, at the UofS. The address to this website is https://medicine.usask.ca/profiles/anatomy-and-cell-biology/brian-eames.php. To learn more about the nature community in the Canadian Prairies, I have been a member of the Saskatoon Nature Society since 2012. I have offered to give a seminar to this group, but I have not yet been scheduled. I recently gave a research talk to SHAD, an initiative that promotes science and engineering to upper-level Canadian high school students. Finally, work from our lab has received University and Saskatoon media attention four times, including a GlobalTV segment on some of our synchrotron imaging in their series “Synchrotron Matters” (http://globalnews.ca/video/2647912/using-the-synchrotron-for-arthritis-research/). These instances of public service promote the UofS to a wider community.


http://globalnews.ca/video/2647912/using-the-synchrotron-for-arthritis-research/

Documents

Sample Case File - Promotion to Associate (Scientist)...BF Eames Case File –Tenure (July 2016) Section III: Page 1 of 137 Case File Section III: Material Provided from the Candidate