Norbert Perrimon, Ph.D. · 2011– James Stillman Professor of Developmental Biology, Harvard Medical School 2015

Norbert Perrimon, Ph.D.

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CURRICULUM VITAE: Norbert Perrimon, Ph.D.

Howard Hughes Medical Institute Harvard Medical School Department of Genetics 77 Avenue Louis Pasteur, NRB 336 Boston MA 02115 617.432.7672 (Phone) | 617.432.7688 (Fax) Email: [email protected]

PERSONAL INFORMATION

• Born: 24 October 1958, Bosguerard de Marcouville, France • Citizenships: France, USA (2005)

EDUCATION

1981 Undergraduate, University of Paris VI. Maitrise of Biochemistry 1983 Graduate Student, University of Paris VI. “These de 3e cycle” Title: “Analyse clonale de l’ovogenese

chez Drosophila melanogaster”. Thesis Advisor: Professor Madeleine Gans

1983-1986 Postdoctoral Research Fellow, Case Western Reserve University, Dr. Anthony Mahowald laboratory

APPOINTMENTS

1986-1993 Assistant Professor, Department of Genetics, Harvard Medical School 1986-1993 Assistant Investigator, Howard Hughes Medical Institute 1993-1996 Associate Professor, Department of Genetics, Harvard Medical School 1993-1997 Associate Investigator, Howard Hughes Medical Institute 1996– Professor, Department of Genetics, Harvard Medical School 1997– Investigator, Howard Hughes Medical Institute 2005– Affiliate Member, Harvard Stem Cell Institute 2006– Associate Member, Broad Institute 2011– James Stillman Professor of Developmental Biology, Harvard Medical School 2015– Adjunct Professor & FlyBase PI, Molecular and Cellular Biology Department, Harvard University

AWARDS/HONORS

1985 Lucille P. Markey Scholar in Biomedical Sciences 1986– Investigator, Howard Hughes Medical Institute 2003 Chaire d’Etat. College de France. Paris 2004 George W. Beadle Medal, Genetics Society of America 2009 RNAi Innovator Award 2008 Elected, American Academy of Arts and Sciences 2009 Elected, American Association for the Advancement of Science 2011 Elected, Associate Member of EMBO 2013 Elected, National Academy of Sciences

PERSONAL STATEMENT

Dr. Perrimon is the James Stillman Professor of Developmental Biology at Harvard Medical School and an Investigator of the Howard Hughes Medical Institute. He has 30 years of experience in the fields of developmental genetics, signal transduction, and genomics. His group developed many methods that have significantly improved the Drosophila toolbox and has characterized many components of signaling pathways. His group established high-throughput genome-wide RNAi screens to systematically interrogate the entire Drosophila genome in various cell-based assays. In 2003 he created the Drosophila RNAi Screening Center (DRSC) to make the technology available to the community, and in 2008 established the Transgenic RNAi Project (TRiP) to build a genome scale resource of transgenic shRNA flies. Currently, his laboratory is applying large-scale RNAi and proteomic methods to obtain a global understanding of the structure of a number of signaling pathways and their cross-talks. In addition, he is studying the roles of signaling pathways in homeostasis and tissue remodeling in Drosophila muscles and gut stem cells. Dr. Perrimon has trained more than 80 students and postdoctoral fellows, many of whom currently hold academic positions. He has been elected to the American Academy of Arts and Sciences, American Association for the Advancement of Science, EMBO, and the National Academy of Sciences.

mailto:[email protected]


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DISTINGUISHED LECTURES / KEYNOTES

Keynotes: FASEB Meeting-Protein Phosphatases (1994). Developmental Biology Meeting (1994). French Developmental Biology Meeting (2001). Ohio University (2001). Japanese Cell Biology Meeting (2002). Bone and Teeth, GRC (2003). FASEB Meeting on Growth Factor Signaling (2005). Keystone Meeting on Signaling Networks (2006). Lorne Cancer Conference (2008). Protein Phosphorylation, Salk (2008). Sheffield Symposium (2008). RNAi Summit (2009). ICDB Retreat, Star Institute Singapore (2009). Recomb 2010. Asian Drosophila Meeting (2011). Montreal Bioinformatics User Group (2011). 25th French Drosophila Conference (2011). Integrative Network Biology (2012). From Stem Cells to Morphogenesis, Curie Institute (2012). UK Genes & Cancer Meeting (2012). ICSB (2013). FEBS JAK/STAT Signaling (2013). Northwest Developmental Meeting (2014). RNAi/CRISPR Meeting (2014). Model Organism Resources (2014). NTU opening symposium (2015). Trans-NIH Developmental Biology Group, National Institutes of Health (2015). 45th Annual Meeting Brazilian Society of Biochemistry and Molecular Biology, Natal, Brazil (2016). Societe Francaise de Genetique, Montpellier (2017). ERATO/CREST/PREST Joint International Symposium–Interorgan Communication, Kyoto (2017).

Distinguished Lectures: Boehringer Ingelheim Lecture, IRCM (2002). President Lecture, Sloan Kettering (2003). R. Williams Lecture, University of Pennsylvania (2004). Richard Akeson Lecture, Univ. of Cincinnati (2004). Distinguished Lecturer, University of California-San Diego (2004). Sterling Lecture, Dana Farber Cancer Institute (2006). Distinguished Lecturer, Fox Chase (2008). Distinguished Lecturer, National Cancer Institute (2008). Society of Fellows, Scripps (2009). Alma Howard Lecture, McGill University (2011). Blaffer Lecture, MD Anderson (2011). Sarah Winans Newman Lecture, University of Michigan (2012). Annual Kaulenas Lecture, University of Massachusetts-Amherst (2015). USIAS Public Lecture, Strasbourg (2017).

PANELS, COMMITTEES, SCIENTIFIC ADVISORY BOARDS

Past: NSF Review Panel, Biological Instrumentation and Resources, (1991-1992). NSF, Academic Research Infrastructure (1992). NCI / NIH, Member, Special Study Section (1994-1995). NINDS / NIH, AdHoc Reviewer, (1997). NSF, Developmental Mechanisms Review Panel (1993-1998). CNRS, Marseille, Scientific Review Committee (1999). DROSOPHILA Developmental Biology Crete Meeting Committee (1995-2008). CNRS Review Committee, Curie UMR-144 (2002). EMBL Scientific Review Committee (2003). MDCN-5 NIH Study Section (2003). HFSP Fellowship Review Committee (2004-2007). ZRG1 FO5 NIH Fellowships Study Section (2004-2006). Carnegie Institute Scientific Review Committee (2004). MGB NIH Study Section (2005). Cell Biology Keystone Symposia Study Group (2005). ZNS1 SRB Scientific Review Group (2006). ZRG1 FO5 NIH Fellowships Study Section (2004-2006). NSF SBIR Panel (2007). Harvard Medical School Scientific Advisory Committee on siRNA Technology (2007-2010). GATC NIH Study Section (2008). ERC Reviewer (2008-2009). Labex Committee (2011). Charles A. King Trust Postdoctoral Research Fellowship Program (2012-2015). Tuberous Sclerosis Writing Group (2015). Max Planck Institute for Biology of Aging, Cologne-Scientific Advisory Board (2011-2017). HFSP Writing Group-Life Science and Biomedical Databases (2016). Norwegian Centres of Excellence Selection Committee (2017). ERC Reviewer (2017).

Current: U.S. Drosophila Stock Center Advisory Board (1996-). IGBMC, Strasbourg Scientific Advisory Board, (2006-). FlyBase PI (2015-). ERC Horizon (2015-2020). Venetian Institute of Molecular Medicine-Scientific Advisory Board (2016-). Alliance for Genomics Research (AGR) Scientific Advisory Board (2016-).

SEMINARS, RESEARCH PRESENTATIONS, MEETINGS (last 5 years)

2013: Yale University. University of Virginia. Retreat, HMS. RNAi Workshop, HMS. HHMI Meeting. TALEN Workshop, Janelia Farm. Neuronal Development Symposium, Baylor University. Keystone Symposia–Cardiac Remodeling, Snowbird. Cell Polarity, London. ICR, London. University of Colorado, Denver. Broad Institute, Cell Circuitry. AACR, Seattle. GRC–Myogenesis, Italy. EXROP, Boston. Cell Polarity FASEB, Steamboat Springs. ICSB, Copenhagen. JAK/STAT, Nottingham. Starr Retreat, CSHL. Skirball Symposium, NYU. Stanford. University of Chicago. University of Utah, SLC.

2014: Keystone Symposia–Aging, Steamboat Springs. Rigel Pharmaceuticals. NYU Genomics & Systems Biology, Abu Dhabi. Northwest Developmental Meeting, Friday Harbor Labs. Stem Cell Symposium, University of Washington. Biochemistry Seminar, Ohio State University. HHMI Meeting. NAS, Washington DC. Smithies Symposium, Madison. CCSB Symposium, Boston. ncRNA Conference, San Diego. Wellcome Drosophila Course, Cambridge UK. Woods Hole Course–Aging. Model Organisms, NIH. Renato Paro Symposium, Basel. NCI Workshop, Houston. Wiley Developmental Biology Board Meeting, New Jersey. Boston Genome. Broad Institute, Boston. Jackson Lab. HTS symposium, Curie Institute. DFCI Cancer Retreat. Burnham, San Diego.

2015: Keystone Meeting–Cell Signaling, Steamboat Springs. Dow Pharmaceuticals. Nanocourse – RNAi, HMS.


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Boston University. Genetics Department Retreat, HMS. Drosophila Research Conference Workshop, Chicago. TSC Workshop, NIH-NINDS. UNC North Carolina. Keystone Symposia – Obesity & Metabolism, Whistler. Novartis. BSDB, Warwick UK. IMB, Vienna. SAB, Strasbourg. HHMI Science Meeting. Starr Consortium Retreat, CSHL. EMBO–Aging, Crete. IRB Barcelona BioMed Conference. Univ. of Milan. ORIP Strategic Planning, NIH. EXROP, Boston. IGTRCN Symposium, Rockville. European Drosophila Research Conference, Frankfurt. BIDMC, Boston. NTU, Singapore. ERC, Brussels. Max Planck Institute, Cologne. CSHA, China. FlyBase SAB. QCB Seminar, Princeton. UMass Amherst. IRCM, Montreal. Developmental Biology Meeting, NIH. Broad Institute Retreat. MCB, Harvard.

2016: Keystone Symposia–Hippo Signaling. Institute for Molecular Medicine, Lisbon. ERC, Brussels. Janelia Farm. HMS, Departmental Retreat. Nanocourse–Organ Communication. Single Cell Analysis, NIH. Muscle Meeting, Israel. University of Tennessee, Knoxville. Biocuration, Geneva. HHMI Meeting. Starr Retreat, CSHL. NHGRI uMOD. Imagine Institut, Paris. VIMM, Italy. Natal, Brazil. ATCG, Orlando.

2017: AACR, San Diego. Harvard Medical School-Genetics Department Retreat, Boston. IGBMC, Strasbourg. University of Strasbourg. Starr Meeting, CSHL. EMBO – Metabolism in Time and Space, Heidelberg, Germany. ISDB, Singapore. Developmental Biology Conference, Pune, India. European Drosophila Research Conference, London. Frontiers in Genomics Seminar, University of New Mexico. Brandeis University Biology / Neuroscience Colloquium Series

2018: Keystone Meeting on Endoderm Development and Disease: Cross-Organ Comparison and Interplay, Taos, NM. Keystone Symposium on Mitochondrial Biology, Kyoto, Japan. Oxford Global's 2nd Annual Genome Editing USA Congress, Boston, MA. Functional Genomic & Genome Editing Symposium – National Institute of Genetics, Shizuoka, Japan. Wellcome Genome Campus "Drosophila Genetics and Genomics" Course, Hinxton, UK. Gordon Conference on Tissue Niches & Resident Stem Cells in Adult Epithelia, Waterville Valley, NH.

MEETINGS ORGANIZED

Segment Polarity Genes, HHMI Workshop, Co-organizer with Dr. R. Nusse (1991). EGF Receptor Signaling in Development and Disease, Co-organizer with Drs. M. Nilsen-Hamilton and E. Adamson (1997). Wnt Genes, Co-organizer with Drs. R. Nusse and A. McMahon (1998). “Signaling molecules in Development” Satellite Meeting, ASBMB (1998). Specificity in Signal Transduction, Keystone Symposia, Co-organizer with Dr. T. Pawson (1999). Workshop on “Techniques”, Annual Drosophila Meeting (2002). Program Committee, American Society for Cell Biology (2003). Epithelial Polarity, France, Co-organizer with T. Lecuit and K. Mostov (2004). “RNAi,” Fondation Les Treilles, France (2004). Cell Polarity, Keystone Symposia.Co-organizer with Dr. B. Margolis and F. Schweisguth (2005). RNAi Workshop, Co-organizer with Dr. B. Mathey-Prevot, Drosophila Meetings (2005-2006). Mini Symposium on Image Analysis, HMS (2006). Atelier Inserm, France, Co-organizer (2007). Workshop on Pattern Formation in Morphogenesis, IHES Paris, Co-organizer (2010). ISDB International Committee (2013). Drosophila Resources, Janelia (2016). EMBO – Metabolism in Time and Space, Heidelberg, Germany, Co-organizer (2017). Quest for Orthologs 5, Los Angeles, Co-organizer (2017).

EDITORIAL BOARDS

Past: Guest Editor, Issue of Methods on Manipulation of Gene Expression (1998). Co-Editor with Dr. C. Stern, Current Opinion in Cell Biology (1999). Co-Editor with Dr. M. Bernfield, Seminars in Cell Biology (2001). Principle Editor, Signaling. The Scientific World (2000-2002). Editorial Board, Genes and Development (1999-2004). Advisor, Nature Cell Biology (2001-2002). Editorial Board, Development (1999-2006). Editorial Board, Developmental Biology (1995-2007). Review Editor, Developmental Cell (2001-2008). Editorial Board, Mechanisms of Development (1999-2010). Advisor, Nature Reviews in Molecular and Cell Biology (2000-2011). Co-Editor with Dr. N. Barkai, BioMed Central Silence (2009-2011). Current Opinion in Genetics and Development (2011). Editor – Issue of Methods on Drosophila Developmen (2014). Associate Editor, Diseases, Models and Mechanisms-Special Issue (2016).

Current: Editorial Board, BioMed Central Dev. Biol. (2000-). Editorial Board, Molecular and Cellular Biology (2000-). Associate, Faculty of 1000 (2001-). Editorial Board, International Journal of Developmental Biology (2002-). Editorial Board, BioMed Central Genomics (2005-). Editorial Board, Genome Biology (2008-). Associate Editor, PLoS Genetics (2008-). Editorial Board, Science Signaling, (2008-) Associate Editor, Genetics (2008-). Editorial Board, BioMed Central Silence (2009-) Editorial Board, Developmental Cell (2009-). Associate Editor, Molecular Systems Biology (2009-). Associate Editor, WIRES-Developmental Biology (2010-). Associate Editor, EMBO Reports (2011-). Advisory Board, Development (2013-). Editorial Board, Flybook (2015-). Editorial Board, Diseases, Models and Mechanisms (2016-). Editorial Board, BioMed Central-Biology (2016-).


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UNIVERSITY ACTIVITIES

Co-Director, Cell and Developmental Biology Training Grant (1994). Dana Farber Executive Committee, Developmental Biology Program (2000). Standing Committee on Faculty Fellowships, HMS (1999-2004). Armenise Foundation Grant Committee (2000-2002). Committee on Imaging Facility (2002). Committee on HMS Research Compliance (2003-2004). Committee, Merck Awards for Genome Related Research (2003-). Faculty Advisory Committee on Administration and Management (2004-2008). HMS University Evaluation Committee (2010). Co-Director, Drosophila RNAi Screening Center at HMS (2003-). Committee on Tools and Technology (2011-). Micron Imaging Committee (2016-).

CONSULTING ACTIVITIES

Novartis (2003-2004). EnVivo Pharmaceuticals, Scientific Advisory Board (2003-2005).

PATENTS

Cell ablation using trans-splicing ribozymes U.S. Patent #5641673 Polypeptide regulation by conditional inteins U.S. Patent Application # 20040091966 Drosophila tumor stem cell model and uses thereof U.S. Patent Application # 20130096067

WEBSITES

http://perrimon.med.harvard.edu/

http://www.hhmi.org/research/investigators/perrimon.html

http://www.hms.harvard.edu/dms/bbs/fac/Perrimon.php

http://flyrnai.org PUBLICATIONS

Research Papers

1. Perrimon N, Gans M. Clonal analysis of the tissue specificity of recessive female sterile mutations of Drosophila melanogaster using a dominant female sterile mutation Fs(1)K1237. Dev Biol. 1983 Dec;100(2):365-73.

2. Perrimon N, Engstrom L, Mahowald AP. The effects of zygotic lethal mutations on female germ-line functions in Drosophila. Dev Biol. 1984 Oct;105(2):404-14.

3. Perrimon N, Engstrom L, Mahowald AP. Developmental genetics of the 2E-F region of the Drosophila X-chromosome: A region rich in "developmentally important " genes. Genetics. 1984 Nov;108(3):559-72. PMCID: PMC1202425.

4. Perrimon N. Clonal Analysis of Dominant Female-Sterile, Germline-Dependent Mutations in Drosophila melanogaster. Genetics. 1984 Dec;108(4):927-39. PMCID: PMC1224274.

5. White RH, Perrimon N, Gehring WJ. Differentiation markers in Drosophila ovary. J Embryol Exp Morphol. 1984 Dec;84:275-86.

6. Perrimon N, Engstrom L, Mahowald AP. A pupal lethal mutation with a paternally influenced maternal effect on embryonic development in Drosophila melanogaster. Dev Biol. 1985 Aug;110(2):480-91.

7. Perrimon N, Engstrom L, Mahowald AP. Developmental genetics of the 2C-D region of the Drosophila X-chromosome. Genetics. 1985 Sep;111(1):23-41. PMCID: PMC1202596.

8. Mortin MA, Perrimon N, Bonner JJ. Clonal analysis of two mutations in the large subunit of RNA polymerase II of Drosophila. Mol Gen Genet. 1985;199(3):421-6.

9. Degelmann A, Hardy P, Perrimon N, Mahowald AP. Developmental analysis of the torso-like phenotype in Drosophila produced by maternal-effect locus. Dev Biol. 1986 Jun;115(2):479-89.

10. Perrimon N, Mohler JD, Engstrom L, Mahowald AP. X-linked female sterile loci in Drosophila melanogaster. Genetics. 1986 Jul;113(3):695-712. PMCID: PMC1202863.

11. Perrimon N, Mahowald, AP. l(1)hopscotch, a larval-pupal zygotic lethal with a specific maternal effect on segmentation in Drosophila. Dev Biol. 1986 Nov;118(1):28-41.

12. Petschek J, Perrimon N, Mahowald AP. Region specific effects in l(1)giant embryos of Drosophila melanogaster. Dev Biol. 1987 Jan;119(1):175-89.

http://perrimon.med.harvard.edu/

http://www.hhmi.org/research/investigators/perrimon.html

http://flyrnai.org/


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13. Perrimon N, Mahowald AP. Multiple functions of the segment polarity genes in Drosophila. Dev Biol. 1987 Feb;119(2):587-600.

14. Mark GE, MacIntyre RJ, Digan ME, Ambrosio L, Perrimon N. Drosophila melanogaster homologs of the raf oncogene. Mol Cell Biol. 1987 Jun;7(6):2134-40. PMCID: PMC365335.

15. Oliver B, Perrimon N, Mahowald AP. The ovo locus is required for sex-specific germ line maintenance in Drosophila. Genes Dev. 1987 Nov;1(9):913-23.

16. Perrimon N. The maternal effect of l(1)discs-large-1: a recessive oncogene in Drosophila melanogaster. Dev Biol. 1988 Jun;127(2):392-407.

17. Smouse D, Goodman C, Mahowald AP, Perrimon N. polyhomeotic: A gene required for the embryonic development of axon pathways in the central nervous system of Drosophila. Genes Dev. 1988 Jul;2(7):830-42.

18. Oliver B, Perrimon N, Mahowald AP. Genetic evidence that the sans fille locus is involved in Drosophila sex determination. Genetics. 1988 Sep;120(1):159-71. PMCID: PMC1203487.

19. Perrimon N, Engstrom L, Mahowald, AP. Zygotic lethals with specific maternal effect phenotypes in Drosophila melanogaster. I. Loci on the X-chromosome. Genetics. 1989 Feb;121(2):333-52. PMCID: PMC1203621.

20. Perrimon N, Smouse D, Miklos GGL. Developmental genetics of loci at the base of the X chromosome of Drosophila melanogaster. Genetics. 1989 Feb;121(2):313-31. PMCID: PMC1203620.

21. Ng SC, Perkins LA, Conboy G, Perrimon N, Fishmann M. A Drosophila gene expressed in the embryonic CNS shares one conserved domain with the mammalian GAP-43. Development. 1989 Mar;105(3):629-38.

22. Ambrosio L, Mahowald AP, Perrimon N. l(1)pole hole is required maternally for pattern formation in the terminal regions of the embryo. Development. 1989 May;106(1):145-58. PMCID: N.A.

23. Klingensmith J, Noll E, Perrimon N. The segment polarity phenotype of Drosophila involves differential tendencies toward transformation and cell death. Dev Biol. 1989 Jul;134(1):130-45. PMCID: N.A.

24. Perrimon N, Smouse D. Multiple functions of a Drosophila homeotic gene, zeste-white 3, during segmentation and neurogenesis. Dev Biol. 1989 Oct;135(2):287-305. PMCID: N.A.

25. Ambrosio L, Mahowald AP, Perrimon N. Requirement of the Drosophila raf homologue for torso function. Nature. 1989 Nov 16;342(6247):288-91. PMCID: N.A.

26. Smouse D, Perrimon N. Genetic dissection of a complex neurological mutant, polyhomeotic, in Drosophila. Dev Biol. 1990 May;139(1):169-85. PMCID: N.A.

27. Perkins LA, Doctor JS, Zhang K, Stinson L, Perrimon N, Craig EA. Molecular and developmental characterization of the heat shock cognate 4 gene of Drosophila melanogaster. Mol Cell Biol. 1990 Jun;10(6):3232-8. PMCID: PMC360688.

28. Siegfried E, Perkins LA, Capaci TM, Perrimon N. Putative protein kinase product of the Drosophila segment-polarity gene zeste-white3. Nature. 1990 Jun 28;345(6278):825-9. PMCID: N.A.

29. Zhang K, Chaillet RJ, Perkins LA, Halazonetis TD, Perrimon N. Drosophila homolog of the mammalian jun oncogene is expressed during embryonic development and activates transcription in mammalian cells. Proc Natl Acad Sci U S A. 1990 Aug;87(16):6281-5. PMCID: PMC54517.

30. Finkelstein R, Perrimon N. The orthodenticle gene is regulated by bicoid and torso and specifies Drosophila head development. Nature. 1990 Aug 2;346(6283):485-8. PMCID: N.A.

31. Finkelstein R, Smouse D, Capaci TM, Spradling AC, Perrimon N. The orthodenticle gene encodes a novel homeo domain protein involved in the development of the Drosophila nervous system and ocellar visual structures. Genes Dev. 1990 Sep;4(9):1516-27. PMCID: N.A.

32. Zhang K, Smouse D, Perrimon N. The crooked neck gene of Drosophila contains a motif found in a family of yeast cell cycle genes. Genes Dev. 1991 Jun;5(6):1080-91. PMCID: N.A.

33. Perrimon N, Noll E, McCall K, Brand A. Generating lineage-specific markers to study Drosophila development. Dev Genet. 1991;12(3):238-52. PMCID: N.A.

34. Kassis JA, Noll E, VanSickle EP, Odenwald WF, Perrimon N. Altering the insertional specificity of a Drosophila transposable element. Proc Natl Acad Sci U S A. 1992 Mar 1;89(5):1919-23. PMCID: PMC48565.

35. Eberl DF, Perkins LA, Engelstein M, Hilliker AJ, Perrimon N. Genetic and developmental analysis of polytene section 17 of the X chromosome of Drosophila melanogaster. Genetics. 1992 Mar;130(3):569-83. PMCID: PMC1204874.


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36. Chou TB, Perrimon N. Use of a yeast site-specific recombinase to produce female germline chimeras in Drosophila. Genetics. 1992 Jul;131(3):643-53. PMCID: PMC1205036.

37. Perkins LA, Larsen I, Perrimon N. corkscrew encodes a putative protein tyrosine phosphatase that functions to transduce the terminal signal from the receptor tyrosine kinase torso. Cell. 1992 Jul 24;70(2):225-36. PMCID: N.A.

38. Wieschaus E, Perrimon N, Finkelstein R. orthodenticle activity is required for the development of medial structures in the larval and adult epidermis of Drosophila. Development. 1992 Jul;115(3):801-11. PMCID: N.A.

39. Rutledge BJ, Zhang K, Bier E, Jan YN, Perrimon N. The Drosophila spitz gene encodes a putative EGF-like growth factor involved in dorsal-ventral axis formation and neurogenesis. Genes Dev. 1992 Aug;6(8):1503-17. PMCID: N.A.

40. Siegfried E, Chou TB, Perrimon N. wingless signaling acts through zeste-white 3, the Drosophila homolog of glycogen synthase kinase-3, to regulate engrailed and establish cell fate. Cell. 1992 Dec 24;71(7):1167-79. PMCID: N.A.

41. Dang DT, Perrimon N. Use of a yeast site-specific recombinase to generate embryonic mosaics in Drosophila. Dev Genet. 1992;13(5):367-75. PMCID: N.A.

42. Lu X, Chou TB, Williams N, Roberts T, Perrimon N. Control of cell fate determination by p21ras /Ras1, an essential component of torso signaling in Drosophila. Genes Dev. 1993 Apr;7(4):621-32. PMCID: N.A.

43. Melnick MB, Perkins LA, Lee M, Ambrosio L, Perrimon N. Developmental and molecular characterization of mutations in the Drosophila-raf serine/threonine protein kinase. Development. 1993 May;118(1):127-38. PMCID: N.A.

44. Brand A, Perrimon N. Targeted gene expression as a means of altering cell fates and generating dominant phenotypes. Development. 1993 Jun;118(2):401-15. PMCID: N.A.

45. Harrison D, Perrimon N. Simple and efficient generation of marked clones in Drosophila. Curr Biol. 1993 Jul 1;3(7):424-33. PMCID: N.A.

46. Melnick MB, Noll E, Perrimon N. The Drosophila stubarista phenotype is associated with a dosage effect of the putative ribosome-associated protein D-p40 on spineless. Genetics. 1993 Oct;135(2):553-64. PMCID: PMC1205655.

47. Chou TB, Noll E, Perrimon N. Autosomal P[ovoD1] dominant female sterile insertions in Drosophila and their use in generating germline chimeras. Development. 1993 Dec;119(4):1359-69. PMCID: N.A.

48. van den Heuvel M, Harryman-Samos C, Klingensmith J, Perrimon N, Nusse, R. Mutations in the segment polarity genes wingless and porcupine impair secretion of the wingless protein. EMBO J. 1993 Dec 15;12(13):5293-302. PMCID: PMC413795.

49. Siegfried E, Wilder E, Perrimon N. Components of wingless signaling in Drosophila. Nature. 1994 Jan 6;367(6458):76-80. PMCID: N.A.

50. Noordermeer J, Klingensmith J, Perrimon N, Nusse R. dishevelled and armadillo are essential components of the wingless signaling pathway in Drosophila. Nature. 1994 Jan 6;367(6458):80-3. PMCID: N.A.

51. Klingensmith J, Nusse R, Perrimon N. The Drosophila segment polarity gene dishevelled encodes a novel protein required for response to the wingless signal. Genes Dev. 1994 Jan;8(1):118-30. PMCID: N.A.

52. Binari R, Perrimon N. Stripe-specific regulation of pair-rule genes by hopscotch, a putative Jak family tyrosine kinase in Drosophila. Genes Dev. 1994 Feb 1;8(3):300-12. PMCID: N.A.

53. Brand A, Perrimon N. Raf acts downstream of the EGF receptor to determine dorso-ventral polarity during Drosophila oogenesis. Genes Dev. 1994 Mar 1;8(5):629-39. PMCID: N.A.

54. Lu X, Melnick MB, Hsu J-C, Perrimon N. Genetics and molecular analysis of mutations involved in Drosophila-raf signal transduction. EMBO J. 1994 Jun 1;13(11):2592-9. PMCID: PMC395133.

55. Hsu J-C, Perrimon N. A temperature sensitive MEK mutation demonstrates the conservation of the signaling pathways activated by receptor tyrosine kinases. Genes Dev. 1994 Sep 15;8(18):2176-87. PMCID: N.A.

56. Sussman DJ, Klingensmith J, Salinas P, Adams PS, Nusse R, Perrimon N. Isolation and characterization of a mouse homolog of the Drosophila segment polarity gene dishevelled. Dev Biol. 1994 Nov;166(1):73-86. PMCID: N.A.


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57. Wilder EL, Perrimon N. Dual functions of wingless in the Drosophila leg imaginal disc. Development. 1995 Feb;121(2):477-88. PMCID: N.A.

58. Hou XS, Chou T-B, Melnick M, Perrimon N. The Torso receptor tyrosine kinase can activate Raf in a Ras-independent pathway. Cell. 1995 Apr 7;81(1):63-71. PMCID: N.A.

59. Sokol SY, Klingensmith J, Perrimon N, Itoh K. Dorsalizing and neuralizing properties of Xdsh, a maternally expressed Xenopus homolog of dishevelled. Development. 1995 Jun;121(6):1637-47. PMCID: N.A.

60. Harrison DA, Binari R, Nahreini TS, Gilman M, Perrimon N. Activation of a Drosophila janus kinase (JAK) causes hematopoietic neoplasia and developmental defects. EMBO J. 1995 Jun 15;14(12):2857-65. PMCID: PMC398404.

61. Rivera-Pomar R, Lu X, Perrimon N, Taubert H, Jackle H. Activation of posterior gap gene expression in the Drosophila blastoderm. Nature. 1995 Jul 20;376(6537):253-6. PMCID: N.A.

62. Yoffe K, Manoukian A, Wilder E, Brand A, Perrimon N. Evidence for engrailed-independent wingless autoregulation in Drosophila. Dev Biol. 1995 Aug;170(2):636-50. PMCID: N.A.

63. Yin JCP, Wallach JS, Wilder EL, Klingensmith J, Dang D, Perrimon N, Zhou H, Tully T, Quinn WG. A Drosophila CREB/CREM homolog encodes multiple isoforms, including a cyclic AMP-dependent protein kinase-responsive transcriptional activator and antagonist. Mol Cell Biol. 1995 Sep;15(9):5123-30. PMCID: PMC230759.

64. Manoukian AS, Yoffe K, Wilder EL, Perrimon N. The porcupine gene is required for wingless autoregulation in Drosophila. Development. 1995 Dec;121(12):4037-44. PMCID: N.A.

65. Hou XS, Melnick MB, Perrimon N. marelle acts downstream of the Drosophila HOP/JAK kinase and encodes a protein similar to the mammalian STATs. Cell. 1996 Feb 9;84(3):411-9. PMCID: N.A.

66. Cleghon V, Gayko U, Copeland TD, Perkins LA, Perrimon N, Morrison DK. Drosophila terminal structure development is regulated by the compensatory activities of positive and negative phosphotyrosine signaling sites on the Torso RTK. Genes Dev. 1996 Mar 1;10(5):566-77. PMCID: N.A.

67. Axelrod JD, Matsuno K, Artavanis-Tsakonas S, Perrimon N. Interaction between Wingless and Notch signaling pathways mediated by Dishevelled. Science. 1996 Mar 29;271(5257):1826-32. PMCID: N.A.

68. Musacchio M, Perrimon N. The Drosophila kekkon genes: novel members of both the leucine-rich repeat and immunoglobulin superfamilies expressed in the CNS. Dev Biol. 1996 Aug 25;178(1):63-76. PMCID: N.A.

69. Klingensmith J, Yang Y, Axelrod JD, Beier DR, Perrimon N, Sussman DJ. Conservation of dishevelled structure and function between flies and mice: isolation and characterization of Dvl2. Mech Dev. 1996 Aug;58(1-2):15-26. PMCID: N.A.

70. Perkins LA, Johnson MR, Melnick MB, Perrimon N. The nonreceptor protein tyrosine phosphatase Corkscrew functions in multiple receptor tyrosine kinase pathways in Drosophila. Dev Biol. 1996 Nov 25;180(1):63-81. PMCID: N.A.

71. Rulifson EJ, Micchelli CA, Axelrod JD, Perrimon N, Blair SS. wingless refines its own expression domain on the Drosophila wing margin. Nature. 1996 Nov 7;384(6604):72-4. PMCID: N.A.

72. Kadowaki T, Wilder E, Klingensmith J, Zachary K, Perrimon N. The segment polarity gene porcupine encodes a putative multitransmembrane protein involved in Wingless processing. Genes Dev. 1996 Dec 15;10(24):3116-28. PMCID: N.A.

73. Chou TB, Perrimon N. The autosomal FLP-DFS technique for generating germline mosaics in Drosophila melanogaster. Genetics. 1996 Dec;144(4):1673-9. PMCID: PMC1207718.

74. Perrimon N, Lanjuin A, Arnold C, Noll E. Zygotic lethal mutations with maternal effect phenotypes in Drosophila melanogaster. II. Loci on the second and third chromosomes identified by P-element induced mutations. Genetics. 1996 Dec;144(4):1681-92. PMCID: PMC1207719.

75. Goode S, Melnick M, Chou TB, Perrimon N. The role of Egghead during morphogenesis of the follicular cell epithelium. Development. 1996 Dec;122(12):3863-79. PMCID: N.A.

76. Yu Y, Li W, Su K, Yussa M, Han W, Perrimon N, Pick L. The nuclear hormone receptor Ftz-F1 is a cofactor for the Drosophila homeodomain protein Ftz. Nature. 1997 Feb 6;385(6616):552-5. PMCID: N.A.

77. Eberl DF, Lorenz LJ, Melnick MB, Sood V, Lasko P, Perrimon N. A new enhancer of position-effect variegation in Drosophila melanogaster encodes a putative RNA helicase that binds chromosomes and is regulated by the cell cycle. Genetics. 1997 Jul;146(3):951-63. PMCID: PMC1208063.


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78. Hou XS, Goldstein ES, Perrimon N. Drosophila Jun relays the Jun amino-terminal kinase signal transduction pathway to the Decapentaplegic signal transduction pathway in regulating epithelial cell sheet movement. Genes Dev. 1997 Jul 1;11(13):1728-37. PMCID: N.A.

79. Häcker U, Lin X, Perrimon N. The Drosophila Sugarless gene modulates Wingless signaling and encodes an enzyme involved in polysaccharide biosynthesis. Development. 1997 Sep;124(18):3565-73. PMCID: N.A.

80. Goode S, Perrimon N. Inhibition of patterned cell shape change and cell invasion by Discs large during Drosophila oogenesis. Genes Dev. 1997 Oct 1;11(19):2532-44. PMCID: PMC316565.

81. Li W, Skoulakis EM, Davis RL, Perrimon N. The Drosophila 14-3-3 protein Leonardo enhances Torso signaling through D-Raf in a Ras 1-dependent manner. Development. 1997 Oct;124(20):4163-71. PMCID: N.A.

82. Eberl DF, Duyk GM, Perrimon N. A genetic screen for mutations that disrupt an auditory response in Drosophila melanogaster. Proc Natl Acad Sci U S A. 1997 Dec 23;94(26):14837-42. PMCID: PMC25124.

83. Häcker U, Perrimon N. DRhoGEF2 encodes a member of the Dbl family of oncogenes and controls cell shape changes during gastrulation in Drosophila. Genes Dev. 1998 Jan 15;12(2):274-84. PMCID: PMC316438.

84. Duffy JB, Harrison DA, Perrimon N. Identifying loci required for follicular patterning using directed mosaics. Development. 1998 Jun;125(12):2263-71. PMCID: N.A.

85. Bellaiche Y, The I, Perrimon N. Tout-velu is a Drosophila homologue of the putative tumor suppressor gene EXT-1, is needed for Hh diffusion. Nature. 1998 Jul 2;394(6688):85-8. PMCID: N.A.

86. Axelrod JD, Miller JR, Shulman JM, Moon RT, Perrimon N. Differential recruitment of Dishevelled provides signaling specificity in the planar cell polarity and Wingless signaling pathways. Genes Dev. 1998 Aug 15;12(16):2610-22. PMCID: PMC317102.

87. Harrison DA, McCoon PE, Binari R, Gilman M, Perrimon N. Drosophila unpaired encodes a secreted protein that activates the JAK signaling pathway. Genes Dev. 1998 Oct 15;12(20):3252-63. PMCID: PMC317220.

88. Cleghon V, Feldmann P, Ghiglione C, Copeland TD, Perrimon N, Hughes DA, Morrison DK. Opposing actions of CSW and RasGAP modulate the strength of Torso RTK signaling in the Drosophila terminal pathway. Mol Cell. 1998 Dec;2(6):719-27. PMCID: N.A.

89. Li W, Melnick M, Perrimon N. Dual Function of Ras in Raf activation. Development. 1998 Dec;125(24):4999-5008. PMCID: N.A.

90. Ghiglione C, Perrimon N, Perkins LA. Quantitative variations in the level of MAPK activity control patterning of the embryonic termini in Drosophila. Dev Biol. 1999 Jan 1;205(1):181-93. PMCID: N.A.

91. Gayko U, Cleghon V, Copeland T, Morrison DK, Perrimon N. Synergistic activities of multiple phosphotyrosine residues mediate full signaling from the Drosophila Torso receptor tyrosine kinase. Proc Natl Acad Sci U S A. 1999 Jan 19;96(2):523-8. PMCID: PMC15169.

92. Ghiglione C, Carraway KL 3rd, Amundadottir LT, Boswell RE, Perrimon N, Duffy JB. The transmembrane molecule kekkon 1 acts in a feedback loop to negatively regulate the activity of the Drosophila EGF receptor during oogenesis.* Co-Senior and corresponding authors. Cell. 1999 Mar 19;96(6):847-56. PMCID: N.A.

93. Zeidler MP, Perrimon N, Strutt DI. Polarity determination in the Drosophila eye: a novel role for unpaired and JAK/STAT signalling. Genes Dev. 1999 May 15;13(10):1342-53. PMCID: PMC316719.

94. Bellaiche Y, Mogila V, Perrimon N. I-SceI endonuclease, a new tool for studying DNA double-strand break repair mechanisms in Drosophila. Genetics. 1999 Jul;152(3):1037-44. PMCID: PMC1460675.

95. Lin X, Perrimon N. Dally cooperates with Drosophila Frizzled 2 to transduce Wingless signaling. Nature. 1999 Jul 15;400(6741):281-4. PMCID: N.A.

96. Lin X, Buff EM, Perrimon N, Michelson AM. Heparan sulfate proteoglycans are essential for FGF receptor signaling during Drosophila embryonic development. Development. 1999 Sep;126(17):3715-23. PMCID: N.A.

97. The I, Bellaiche Y, Perrimon N. Hedgehog movement is regulated through tout velu-dependent synthesis of a heparan sulfate proteoglycan. Mol Cell. 1999 Oct;4(4):633-9. PMCID: N.A.


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98. Martín-Blanco E, Roch F, Noll E, Baonza A, Duffy JB, Perrimon N. A temporal switch in DER signaling controls the specification and differentiation of veins and interveins in the Drosophila wing. Development. 1999 Dec;126(24):5739-47. PMCID: N.A.

99. Zeidler MP, Perrimon N, Strutt DI. The four jointed gene is required in the Drosophila eye for ommatidial polarity specification. Curr Biol. 1999 Dec 2;9(23):1363-72. PMCID: N.A.

100. Bilder D, Perrimon N. Localization of apical epithelial determinants by the basolateral PDZ protein Scribble. Nature. 2000 Feb 10;403(6770):676-80. PMCID: N.A.

101. Tanaka K, Okabayashi K, Asashima M, Perrimon N, Kadowaki T. The evolutionarily conserved porcupine gene family is involved in the processing of the Wnt family. Eur J Biochem. 2000 Jul;267(13):4300-11. PMCID: N.A.

102. Bilder D, Li M, Perrimon N. Cooperative regulation of cell polarity and growth by Drosophila tumor suppressors. Science. 2000 Jul 7;289(5476):113-6. PMCID: N.A.

103. Baum B, Li W, Perrimon N. A cyclase-associated protein regulates actin and cell polarity during Drosophila oogenesis and in yeast. Curr Biol. 2000 Aug 24;10(16):964-73. PMCID: N.A.

104. Li W, Noll E, Perrimon N. Identification of autosomal regions involved in Drosophila Raf function. Genetics. 2000 Oct;156(2):763-74. PMCID: PMC1461272.

105. Noll E, Medina M, Hartley D, Zhou J, Perrimon N, Kosik KS. Presenilin affects arm/beta-catenin localization and function in Drosophila. Dev Biol. 2000 Nov 15;227(2):450-64. PMCID: N.A.

106. Zeidler MP, Perrimon N, Strutt DI. Multiple roles for four-jointed in planar polarity and limb patterning. Dev Biol. 2000 Dec 15;228(2):181-96. PMCID: N.A.

107. Baeg GH, Lin X, Khare N, Baumgartner S, Perrimon N. Heparan sulfate proteoglycans are critical for the organization of the extracellular distribution of Wingless. Development. 2001 Jan;128(1):87-94. PMCID: N.A.

108. Bai J, Chiu W, Wang J, Tzeng T, Perrimon N, Hsu J. The cell adhesion molecule Echinoid defines a new pathway that antagonizes the Drosophila EGF receptor signaling pathway. Development. 2001 Feb;128(4):591-601. PMCID: N.A.

109. Stronach BE, Perrimon N. Investigation of leading edge formation at the interface of amnioserosa and dorsal ectoderm in the Drosophila embryo. Development. 2001 Aug;128(15):2905-13. PMCID: N.A.

110. Selva EM, Hong K, Baeg GH, et al. Dual role of the fringe connection gene in both heparan sulphate and fringe-dependent signalling events. Nat Cell Biol. 2001 Sep;3(9):809-15. PMCID: N.A.

111. Suzanne M, Perrimon N, Noselli S. The Drosophila JNK pathway controls the morphogenesis of the egg dorsal appendages and micropyle. Dev Biol. 2001 Sep 15;237(2):282-94. PMCID: N.A.

112. Baum B, Perrimon N. Spatial control of the actin cytoskeleton in Drosophila epithelial cells. Nat Cell Biol. 2001 Oct;3(10):883-90. PMCID: N.A.

113. Hong Y, Stronach B, Perrimon N, Jan LY, Jan YN. Drosophila Stardust interacts with Crumbs to control polarity of epithelia but not neuroblasts. Nature. 2001 Dec 6;414(6864):634-8. PMCID: N.A.

114. Ghiglione C, Bach EA, Paraiso Y, Carraway KL 3rd, Noselli S, Perrimon N. Mechanism of activation of the

Drosophila EGF Receptor by the TGF ligand Gurken during oogenesis. Development. 2002 Jan;129(1):175-86. PMCID: N.A.

115. Stronach B, Perrimon N. Activation of the JNK pathway during dorsal closure in Drosophila requires the mixed lineage kinase, slipper. Genes Dev. 2002 Feb 1;16(3):377-87. PMCID: PMC155330.

116. Micchelli CA, The I, Selva E, Mogila V, Perrimon N. Rasp, a putative transmembrane acyltransferase, is required for Hedgehog signaling. Development. 2002 Feb;129(4):843-51. PMCID: N.A.

117. Chen HW, Marinissen MJ, Oh SW, Chen X, Melnick M, Perrimon N, Gutkind JS, Hou SX. CKA, a novel multidomain protein, regulates the JUN N-terminal kinase signal transduction pathway in Drosophila. Mol Cell Biol. 2002 Mar;22(6):1792-803. PMCID: PMC135602.

118. Mathew D, Gramates LS, Packard M, Thomas U, Bilder D, Perrimon N, Gorczyca M, Budnik V. Recruitment of scribble to the synaptic scaffolding complex requires GUK-holder, a novel DLG binding protein. Curr Biol. 2002 Apr 2;12(7):531-9. PMCID: PMC4661175.

119. Schöck F, Perrimon N. Cellular processes associated with germ band retraction in Drosophila. Dev Biol. 2002 Aug 1;248(1):29-39. PMCID: N.A.


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120. Li WX, Agaisse H, Mathey-Prevot B, Perrimon N. Differential requirement for STAT by gain-of-function and wild-type receptor tyrosine kinase Torso in Drosophila. Development. 2002 Sep;129(18):4241-8. PMCID: PMC3090254.

121. Hrdlicka L, Gibson M, Kiger A, Micchelli C, Schober M, Schöck F, Perrimon N. Analysis of twenty-four Gal4 lines in Drosophila melanogaster. Genesis. 2002 Sep-Oct;34(1-2):51-7. PMCID: N.A.

122. Boutros M, Agaisse H, Perrimon N. Sequential activation of signaling pathways during innate immune responses in Drosophila. Dev Cell. 2002 Nov;3(5):711-22. PMCID: N.A.

123. Wills Z, Emerson M, Rusch J, Bikoff J, Baum B, Perrimon N, Van Vactor D. A Drosophila homologue of cyclase-associated proteins collaborates with the Abl tyrosine kinase to control midline axon pathfinding. Neuron. 2002 Nov 14;36(4):611-22. PMCID: N.A.

124. Song HJ, Billeter JC, Reynaud E, Carlo T, Spana EP, Perrimon N, Goodwin SF, Baker BS, Taylor BJ. The fruitless gene is required for the proper formation of axonal tracts in the embryonic central nervous system of Drosophila. Genetics. 2002 Dec;162(4):1703-24. PMCID: PMC1462372.

125. Bilder D, Schober M, Perrimon N. Integrated activity of PDZ protein complexes regulates epithelial polarity. Nat Cell Biol. 2003 Jan;5(1):53-8. PMCID: N.A.

126. Micchelli CA, Esler WP, Kimberly WT, Jack C, Berezovska O, Kornilova A, Hyman BT, Perrimon N, Wolfe MS. Gamma-secretase/presenilin inhibitors for Alzheimer's disease phenocopy Notch mutations in Drosophila. FASEB J. 2003 Jan;17(1):79-81. PMCID: N.A.

127. Tan C, Stronach B, Perrimon N. Roles of myosin phosphatase during Drosophila development. Development. 2003 Feb;130(4):671-81. PMCID: N.A.

128. Schöck F, Perrimon N. Retraction of the Drosophila germ band requires cell-matrix interaction. Genes Dev. 2003 Mar 1;17(5):597-602. PMCID: PMC196012.

129. Adám G, Perrimon N, Noselli S. The retinoic-like juvenile hormone controls the looping of left-right asymmetric organs in Drosophila. Development. 2003 Jun;130(11):2397-406. PMCID: N.A.

130. Bashirullah A, Pasquinelli AE, Kiger AA, Perrimon N, Ruvkun G, Thummel CS. Coordinate regulation of small temporal RNAs at the onset of Drosophila metamorphosis. Dev Biol. 2003 Jul 1;259(1):1-8. PMCID: N.A.

131. Lüders F, Segawa H, Stein D, Selva EM, Perrimon N, Turco SJ, Häcker U. Slalom encodes an adenosine 3'-phosphate 5'-phosphosulfate transporter essential for development in Drosophila. EMBO J. 2003 Jul 15;22(14):3635-44. PMCID: PMC165615.

132. Ghiglione C, Amundadottir L, Andresdottir M, Bilder D, Diamonti JA, Noselli S, Perrimon N, Carraway III KL. Mechanism of inhibition of the Drosophila and mammalian EGF receptors by the transmembrane protein Kekkon 1. Development. 2003 Sep;130(18):4483-93. PMCID: N.A.

133. Agaisse H, Petersen UM, Boutros M, Mathey-Prevot B, Perrimon N. Signaling role of hemocytes in Drosophila JAK/STAT-dependent response to septic injury. Dev Cell. 2003 Sep;5(3):441-50. PMCID: N.A.

134. Sasamura T, Sasaki N, Miyashita F, Nakao S, Ishikawa HO, Ito M, Kitagawa M, Harigaya K, Spana E, Bilder D, Perrimon N, Matsuno K. neurotic, a novel maternal neurogenic gene, encodes an O-fucosyltransferase homolog that is essential for Notch-Delta interactions. Development. 2003 Oct;130(20):4785-95. PMCID: N.A.

135. Kiger AA, Baum B, Jones S, Jones MR, Coulson A, Echeverri C, Perrimon N. A functional genomic analysis of cell morphology using RNA-interference. J Biol. 2003;2(4):27. PMCID: PMC333409.

136. Bach EA, Vincent S, Zeidler MP, Perrimon N. A sensitized genetic screen to identify novel regulators and components of the Drosophila Janus Kinase/Signal Transducer and Activator of Transcription Pathway. Genetics. 2003 Nov;165(3):1149-66. PMCID: PMC1462825.

137. Cherry S, Perrimon N. Entry is a rate-limiting step for viral infection in a Drosophila melanogaster model of pathogenesis. Nat Immunol. 2004 Jan;5(1):81-7. PMCID: N.A.

138. Boutros M, Kiger AA, Armknecht S, Kerr K, Hild M, Koch B, Haas SA, Paro R, Perrimon N; Heidelberg Fly Array Consortium. Genome-wide RNAi analysis of growth and viability in Drosophila cells. Science. 2004 Feb 6;303(5659):832-5. PMCID: N.A.

139. Zeidler MP, Tan C, Bellaiche Y, Cherry S, Häder S, Gayko U, Perrimon N. Temperature-sensitive control of protein activity by conditionally splicing inteins. Nat Biotechnol. 2004 Jul;22(7):871-6. PMCID: N.A.

140. Brückner K, Kockel L, Duchek P, Luque CM, Rørth P, Perrimon N. The PDGF/VEGF receptor controls blood cell survival in Drosophila. Dev Cell. 2004 Jul;7(1):73-84. PMCID: N.A.


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141. Sinenko SA, Kim EK, Wynn R, Manfruelli P, Ando I, Wharton KA, Perrimon N, Mathey-Prevot B. Yantar, a conserved arginine-rich protein is involved in Drosophila hemocyte development. Dev Biol. 2004 Sep 1;273(1):48-62. PMCID: N.A.

142. Schlesinger A, Kiger A, Perrimon N, Shilo BZ. Small wing PLCgamma is required for ER retention of cleaved Spitz during eye development in Drosophila. Dev Cell. 2004 Oct;7(4):535-45. PMCID: N.A.

143. Eggert US, Kiger AA, Richter C, Perlman ZE, Perrimon N, Mitchison TJ, Field CM. Parallel chemical genetic and genome-wide RNAi screens identify cytokinesis inhibitors and targets. PLoS Biol. 2004 Dec;2(12):e379. PMCID: PMC528723.

144. Baeg GH, Selva EM, Goodman RM, Dasgupta R, Perrimon N. The Wingless morphogen gradient is established by the cooperative action of Frizzled and Heparan Sulfate Proteoglycan receptors. Dev Biol. 2004 Dec 1;276(1):89-100. PMCID: N.A.

145. Cherry S, Doukas T, Armknecht S, Whelan S, Wang H, Sarnow P, Perrimon N. Genome-wide RNAi screen reveals a specific sensitivity of IRES-containing RNA viruses to host translation inhibition. Genes Dev. 2005 Feb 15;19(4):445-52. PMCID: PMC548945.

146. Gibson MC, Perrimon N. Extrusion and death of DPP/BMP-compromised epithelial cells in the developing Drosophila wing. Science. 2005 Mar 18;307(5716):1785-9. PMCID: N.A.

147. Hayward P, Brennan K, Sanders P, Balayo T, DasGupta R, Perrimon N, Martinez Arias A. Notch modulates Wnt signalling by associating with Armadillo/beta-catenin and regulating its transcriptional activity. Development. 2005 Apr;132(8):1819-30. PMCID: PMC2500123.

148. DasGupta R, Kaykas A, Moon RT, Perrimon N. Functional genomic analysis of the Wnt-wingless signaling pathway. Science. 2005 May 6;308(5723):826-33. PMCID: N.A.

149. Schober M, Rebay I, Perrimon N. Function of the ETS transcription factor Yan in border cell migration. Development. 2005 Aug;132(15):3493-504. PMCID: N.A.

150. Baeg GH, Zhou R, Perrimon N. Genome-wide RNAi analysis of JAK/STAT signaling components in Drosophila. Genes Dev. 2005 Aug 15;19(16):1861-70. PMCID: PMC1186186.

151. Philips JA, Rubin EJ, Perrimon N. Drosophila RNAi screen reveals CD36 family member required for mycobacterial infection. Science. 2005 Aug 19;309(5738):1251-3. PMCID: N.A.

152. Agaisse H, Burrack LS, Philips JA, Rubin EJ, Perrimon N, Higgins DE. Genome-wide RNAi screen for host factors required for intracellular bacterial infection. Science. 2005 Aug 19;309(5738):1248-51. PMCID: N.A.

153. Kirilly D, Spana EP, Perrimon N, Padgett RW, Xie T. BMP signaling is required for controlling somatic stem cell self-renewal in the Drosophila ovary. Dev Cell. 2005 Nov;9(5):651-62. PMCID: N.A.

154. Nybakken K, Vokes SA, Lin TY, McMahon AP, Perrimon N. A genome-wide RNA interference screen in Drosophila melanogaster cells for new components of the Hh signaling pathway. Nat Genet. 2005 Dec;37(12):1323-32. PMCID: N.A.

155. Flockhart I, Booker M, Kiger A, Boutros M, Armknecht S, Ramadan N, Richardson K, Xu A, Perrimon N, Mathey-Prevot B. FlyRNAi: the Drosophila RNAi screening center database. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D489-94. PMCID: PMC1347476.

156. Micchelli CA, Perrimon N. Evidence that stem cells reside in the adult Drosophila midgut epithelium. Nature. 2006 Jan 26;439(7075):475-9. PMCID: N.A.

157. Bard F, Casano L, Mallabiabarrena A, Wallace E, Saito K, Kitayama H, Guizzunti G, Hu Y, Wendler F, Dasgupta R, Perrimon N, Malhotra V. Functional genomics reveals genes involved in protein secretion and Golgi organization. Nature. 2006 Feb 2;439(7076):604-7. PMCID: N.A.

158. Karsten P, Plischke I, Perrimon N, Zeidler MP. Mutational analysis reveals separable DNA binding and trans-activation of Drosophila STAT92E. Cell Signal. 2006 Jun;18(6):819-29. PMCID: N.A.

159. Chen LY, Wang JC, Hyvert Y, Lin HP, Perrimon N, Imler JL, Hsu JC. Weckle is a zinc finger adaptor of the toll pathway in dorsoventral patterning of the Drosophila embryo. Curr Biol. 2006 Jun 20;16(12):1183-93. PMCID: N.A.

160. Gibson MC, Patel AB, Nagpal R, Perrimon N. The emergence of geometric order in proliferating metazoan epithelia. Nature. 2006 Aug 31;442(7106):1038-41. PMCID: N.A.

161. Cherry S, Kunte A, Wang H, Coyne C, Rawson RB, Perrimon N. COPI activity coupled with fatty acid biosynthesis is required for viral replication. PLoS Pathog. 2006 Oct;2(10):e102. PMCID: PMC1599761.


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162. Kulkarni MM, Booker M, Silver SJ, Friedman A, Hong P, Perrimon N, Mathey-Prevot B. Evidence of off-target effects associated with long dsRNAs in Drosophila melanogaster cell-based assays. Nat Methods. 2006 Oct;3(10):833-8. PMCID: N.A.

163. Friedman A, Perrimon N. A functional RNAi screen for regulators of receptor tyrosine kinase and ERK signalling. Nature. 2006 Nov 9;444(7116):230-4. PMCID: N.A.

164. Bach EA, Ekas LA, Ayala-Camargo A, Flaherty MS, Lee H, Perrimon N, Baeg GH. GFP reporters detect the activation of the Drosophila JAK/STAT pathway in vivo. Gene Expr Patterns. 2007 Jan;7(3):323-31. PMCID: N.A.

165. Lu J, Ruhf ML, Perrimon N, Leder P. A genome-wide RNA interference screen identifies putative chromatin regulators essential for E2F repression. Proc Natl Acad Sci U S A. 2007 May 29;104(22):9381-6. PMCID: PMC1890503.

166. Bakal C, Aach J, Church G, Perrimon N. Quantitative morphological signatures define local signaling networks regulating cell morphology. Science. 2007 Jun 22;316(5832):1753-6. PMCID: N.A.

167. DasGupta R, Nybakken K, Booker M, Mathey-Prevot B, Gonsalves F, Changkakoty B, Perrimon N. A case study of the reproducibility of transcriptional reporter cell-based RNAi screens in Drosophila. Genome Biol. 2007;8(9):R203. PMCID: PMC2375041.

168. Silver SJ, Hagen JW, Okamura K, Perrimon N, Lai EC. Functional screening identifies miR-315 as a potent activator of Wingless signaling. Proc Natl Acad Sci U S A. 2007 Nov 13;104(46):18151-6. PMCID: PMC2084312.

169. Bai J, Hartwig JH, Perrimon N. SALS, a WH2-domain-containing protein, promotes sarcomeric actin filament elongation from pointed ends during Drosophila muscle growth. Dev Cell. 2007 Dec;13(6):828-42. PMCID: N.A.

170. Vinegoni C, Pitsouli C, Razansky D, Perrimon N, Ntziachristos V. In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography. Nat Methods. 2008 Jan;5(1):45-7. PMCID: N.A.

171. Ni JQ, Markstein M, Binari R, Pfeiffer B, Liu LP, Villalta C, Booker M, Perkins L, Perrimon N. Vector and parameters for targeted transgenic RNA interference in Drosophila melanogaster. Nat Methods. 2008 Jan;5(1):49-51. PMCID: PMC2290002.

172. Wang J, Zhou X, Bradley PL, Chang SF, Perrimon N, Wong ST. Cellular phenotype recognition for high-content RNA interference genome-wide screening. J Biomol Screen. 2008 Jan;13(1):29-39. PMCID: N.A.

173. Philips JA, Porto MC, Wang H, Rubin EJ, Perrimon N. ESCRT factors restrict mycobacterial growth. Proc Natl Acad Sci U S A. 2008 Feb 26;105(8):3070-5. PMCID: PMC2268586.

174. Bai J, Binari R, Ni JQ, Vijayakanthan M, Li HS, Perrimon N. RNA interference screening in Drosophila primary cells for genes involved in muscle assembly and maintenance. Development. 2008 Apr;135(8):1439-49. PMCID: N.A.

175. Markstein M, Pitsouli C, Villalta C, Celniker SE, Perrimon N. Exploiting position effects and the gypsy retrovirus insulator to engineer precisely expressed transgenes. Nat Genet. 2008 Apr;40(4):476-83. PMCID: PMC2330261.

176. Czech B, Malone CD, Zhou R, Stark A, Schlingeheyde C, Dus M, Perrimon N, Kellis M, Wohlschlegel JA, Sachidanandam R, Hannon GJ, Brennecke J. An endogenous small interfering RNA pathway in Drosophila. Nature. 2008 Jun 5;453(7196):798-802. PMCID: PMC2895258.

177. Yin Z, Zhou X, Bakal C, Li F, Sun Y, Perrimon N, Wong ST. Using iterative cluster merging with improved gap statistics to perform online phenotype discovery in the context of high-throughput RNAi screens. BMC Bioinformatics. 2008 Jun 5;9:264. PMCID: PMC2443381.

178. Sepp KJ, Hong P, Lizarraga SB, Liu JS, Mejia LA, Walsh CA, Perrimon N. Identification of neural outgrowth genes using genome-wide RNAi. PLoS Genet. 2008 Jul 4;4(7):e1000111. PMCID: PMC2435276.

179. Vincent S, Perrimon N, Axelrod JD. Hedgehog and Wingless stabilize but do not induce cell fate during Drosophila dorsal embryonic epidermal patterning. Development. 2008 Aug;135(16):2767-75. PMCID: PMC2585068.

180. Bakal C, Linding R, Llense F, Heffern E, Martin-Blanco E, Pawson T, Perrimon N. Phosphorylation networks regulating JNK activity in diverse genetic backgrounds. Science. 2008 Oct 17;322(5900):453-6. PMCID: PMC2581798.


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181. Zhou R, Hotta I, Denli AM, Hong P, Perrimon N, Hannon GJ. Comparative analysis of argonaute-dependent small RNA pathways in Drosophila. Mol Cell. 2008 Nov 21;32(4):592-9. PMCID: PMC2615197.

182. Wang J, Zhou X, Li F, Bradley PL, Chang SF, Perrimon N, Wong ST. An image score inference system for RNAi genome-wide screening based on fuzzy mixture regression modeling. J Biomed Inform. 2009 Feb;42(1):32-40. PMCID: PMC2763194.

183. Demontis F, Perrimon N. Integration of Insulin receptor/Foxo signaling and dMyc activity during muscle growth regulates body size in Drosophila. Development. 2009 Mar;136(6):983-93. PMCID: PMC2727562.

184. Zhang S, Feany MB, Saraswati S, Littleton JT, Perrimon N. Inactivation of Drosophila Huntingtin affects long-term adult functioning and the pathogenesis of a Huntington's disease model. Dis Model Mech. 2009 May-Jun;2(5-6):247-66. PMCID: PMC2675792.

185. Ni JQ, Liu LP, Binari R, Hardy R, Shim HS, Cavallaro A, Booker M, Pfeiffer BD, Markstein M, Wang H, Villalta C, Laverty TR, Perkins LA, Perrimon N. A Drosophila resource of transgenic RNAi lines for neurogenetics. Genetics. 2009 Aug;182(4):1089-100. PMCID: PMC2728850.

186. Griffin R, Sustar A, Bonvin M, Binari R, del Valle Rodriguez A, Hohl AM, Bateman JR, Villalta C, Heffern E, Grunwald D, Bakal C, Desplan C, Schubiger G, Wu CT, Perrimon N. The twin spot generator for differential Drosophila lineage analysis. Nat Methods. 2009 Aug;6(8):600-2. PMCID: PMC2720837.

187. Brouzes E, Medkova M, Savenelli N, Marran D, Twardowski M, Hutchison JB, Rothberg JM, Link DR, Perrimon N, Samuels ML. Droplet microfluidic technology for single-cell high-throughput screening. Proc Natl Acad Sci U S A. 2009 Aug 25;106(34):14195-200. PMCID: PMC2732882.

188. Zhou R, Czech B, Brennecke J, Sachidanandam R, Wohlschlegel JA, Perrimon N, Hannon GJ. Processing of Drosophila endo-siRNAs depends on a specific Loquacious isoform. RNA. 2009 Oct;15(10):1886-95. PMCID: PMC2743050.

189. Kondo S, Booker M, Perrimon N. Cross-species RNAi rescue platform in Drosophila melanogaster. Genetics. 2009 Nov;183(3):1165-73. PMCID: PMC2778968.

190. Czech B, Zhou R, Erlich Y, Brennecke J, Binari R, Villalta C, Gordon A, Perrimon N, Hannon GJ. Hierarchical rules for Argonaute loading in Drosophila. Mol Cell. 2009 Nov 13;36(3):445-56. PMCID: PMC2795325.

191. Yang X, Friedman A, Nagpal S, Perrimon N, Asara JM. Use of a label-free quantitative platform based on MS/MS average TIC to calculate dynamics of protein complexes in insulin signaling. J Biomol Tech. 2009 Dec;20(5):272-7. PMCID: PMC2777340.

192. Apidianakis Y, Pitsouli C, Perrimon N, Rahme L. Synergy between bacterial infection and genetic predisposition in intestinal dysplasia. Proc Natl Acad Sci U S A. 2009 Dec 8;106(49):20883-8. PMCID: PMC2791635.

193. Nir O, Bakal C, Perrimon N, Berger B. Inference of RhoGAP/GTPase regulation using single-cell morphological data from a combinatorial RNAi screen. Genome Res. 2010 Mar;20(3):372-80. PMCID: PMC2840989.

194. Zhang S, Binari R, Zhou R, Perrimon N. A genomewide RNA interference screen for modifiers of aggregates formation by mutant Huntingtin in Drosophila. Genetics. 2010 Apr;184(4):1165-79. PMCID: PMC2865916.

195. Kockel L, Kerr KS, Melnick M, Brückner K, Hebrok M, Perrimon N. Dynamic switch of negative feedback regulation in Drosophila Akt-TOR signaling. PLoS Genet. 2010 Jun 17;6(6):e1000990. PMCID: PMC2887466.

196. Yan H, Venkatesan K, Beaver JE, Klitgord N, Yildirim MA, Hao T, Hill DE, Cusick ME, Perrimon N, Roth FP, Vidal M. A genome-wide gene function prediction resource for Drosophila melanogaster. PLoS One. 2010 Aug 12;5(8):e12139. PMCID: PMC2920829.

197. Schnall-Levin M, Zhao Y, Perrimon N, Berger B. Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs. Proc Natl Acad Sci U S A. 2010 Sep 7;107(36):15751-6. PMCID: PMC2936641.

198. Pitsouli C, Perrimon N. Embryonic multipotent progenitors remodel the Drosophila airways during metamorphosis. Development. 2010 Nov;137(21):3615-24. PMCID: PMC2964094.

199. Rui Y, Bai J, Perrimon N. Sarcomere formation occurs by the assembly of multiple latent protein complexes. PLoS Genet. 2010 Nov 18;6(11):e1001208. PMCID: PMC2987826.


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200. Demontis F, Perrimon N. FOXO/4E-BP signaling in Drosophila muscles regulates organism-wide proteostasis during aging. Cell. 2010 Nov 24;143(5):813-25. PMCID: PMC3066043.

201. Karpowicz P, Perez J, Perrimon N. The Hippo tumor suppressor pathway regulates intestinal stem cell regeneration. Development. 2010 Dec;137(24):4135-45. PMCID: PMC2990205.

202. modENCODE Consortium. Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science. 2010 Dec 24;330(6012):1787-97. PMCID: PMC3192495.

203. Kondo S, Perrimon N. A genome-wide RNAi screen identifies core components of the G₂-M DNA damage checkpoint. Sci Signal. 2011 Jan 4;4(154):rs1. PMCID: PMC3489265.

204. Booker M, Samsonova AA, Kwon Y, Flockhart I, Mohr SE, Perrimon N. False negative rates in Drosophila cell-based RNAi screens: a case study. BMC Genomics. 2011 Jan 20;12:50. PMCID: PMC3036618.

205. Micchelli CA, Sudmeier L, Perrimon N, Tang S, Beehler-Evans R. Identification of adult midgut precursors in Drosophila. Gene Expr Patterns. 2011 Jan-Feb;11(1-2):12-21. PMCID: N.A.

206. Cherbas L, Willingham A, Zhang D, Yang L, Zou Y, Eads BD, Carlson JW, Landolin JM, Kapranov P, Dumais J, Samsonova A, Choi JH, Roberts J, Davis CA, Tang H, van Baren MJ, Ghosh S, Dobin A, Bell K, Lin W, Langton L, Duff MO, Tenney AE, Zaleski C, Brent MR, Hoskins RA, Kaufman TC, Andrews J, Graveley BR, Perrimon N, Celniker SE, Gingeras TR, Cherbas P. The transcriptional diversity of 25 Drosophila cell lines. Genome Res. 2011 Feb;21(2):301-14. PMCID: PMC3032933.

207. Gibson WT, Veldhuis JH, Rubinstein B, Cartwright HN, Perrimon N, Brodland GW, Nagpal R, Gibson MC. Control of the mitotic cleavage plane by local epithelial topology. Cell. 2011 Feb 4;144(3):427-38. PMCID: PMC3491649.

208. Berezikov E, Robine N, Samsonova A, Westholm JO, Naqvi A, Hung JH, Okamura K, Dai Q, Bortolamiol-Becet D, Martin R, Zhao Y, Zamore PD, Hannon GJ, Marra MA, Weng Z, Perrimon N, Lai EC. Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence. Genome Res. 2011 Feb;21(2):203-15. PMCID: PMC3032924.

209. Graveley BR, Brooks AN, Carlson JW, Duff MO, Landolin JM, Yang L, Artieri CG, van Baren MJ, Boley N, Booth BW, Brown JB, Cherbas L, Davis CA, Dobin A, Li R, Lin W, Malone JH, Mattiuzzo NR, Miller D, Sturgill D, Tuch BB, Zaleski C, Zhang D, Blanchette M, Dudoit S, Eads B, Green RE, Hammonds A, Jiang L, Kapranov P, Langton L, Perrimon N, Sandler JE, Wan KH, Willingham A, Zhang Y, Zou Y, Andrews J, Bickel PJ, Brenner SE, Brent MR, Cherbas P, Gingeras TR, Hoskins RA, Kaufman TC, Oliver B, Celniker SE. The developmental transcriptome of Drosophila melanogaster. Nature. 2011 Mar 24;471(7339):473-9. PMCID: PMC3075879.

210. Chan WM, Tsoi H, Wu CC, Wong CH, Cheng TC, Li HY, Lau KF, Shaw PC, Perrimon N, Chan HY. Expanded polyglutamine domain possesses nuclear export activity which modulates subcellular localization and toxicity of polyQ disease protein via exportin-1. Hum Mol Genet. 2011 May 1;20(9):1738-50. PMCID: N.A.

211. Ni JQ, Zhou R, Czech B, Liu LP, Holderbaum L, Yang-Zhou D, Shim HS, Tao R, Handler D, Karpowicz P, Binari R, Booker M, Brennecke J, Perkins LA, Hannon GJ, Perrimon N. A genome-scale shRNA resource for transgenic RNAi in Drosophila. Nat Methods. 2011 May;8(5):405-7. PMCID: PMC3489273.

212. Hu Y, Flockhart I, Vinayagam A, Bergwitz C, Berger B, Perrimon N, Mohr SE. An integrative approach to ortholog prediction for disease-focused and other functional studies. BMC Bioinformatics. 2011 Aug 31;12:357. PMCID: PMC3179972.

213. Schnall-Levin M, Rissland OS, Johnston WK, Perrimon N, Bartel DP, Berger B. Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs. Genome Res. 2011 Sep;21(9):1395-403. PMCID: PMC3166825.

214. Rohn JL, Sims D, Liu T, Fedorova M, Schöck F, Dopie J, Vartiainen MK, Kiger AA, Perrimon N, Baum B. Comparative RNAi screening identifies a conserved core metazoan actinome by phenotype. J Cell Biol. 2011 Sep 5;194(5):789-805. PMCID: PMC3171124.

215. Friedman AA, Tucker G, Singh R, Yan D, Vinayagam A, Hu Y, Binari R, Hong P, Sun X, Porto M, Pacifico S, Murali T, Finley RL Jr, Asara JM, Berger B, Perrimon N. Proteomic and functional genomic landscape of receptor tyrosine kinase and ras to extracellular signal-regulated kinase signaling. Sci Signal. 2011 Oct 25;4(196):rs10. PMCID: PMC3439136.

216. Flockhart IT, Booker M, Hu Y, McElvany B, Gilly Q, Mathey-Prevot B, Perrimon N, Mohr SE. FlyRNAi.org--the database of the Drosophila RNAi screening center: 2012 update. Nucleic Acids Res. 2012 Jan;40(Database issue):D715-9. PMCID: PMC3245182.


15

217. Bergwitz C, Rasmussen MD, DeRobertis C, Wee MJ, Sinha S, Chen HH, Huang J, Perrimon N. Roles of major facilitator superfamily transporters in phosphate response in Drosophila. PLoS One. 2012;7(2):e31730. PMCID: PMC3280997.

218. Neumüller RA, Wirtz-Peitz F, Lee S, Kwon Y, Buckner M, Hoskins RA, Venken KJ, Bellen HJ, Mohr SE, Perrimon N. Stringent analysis of gene function and protein-protein interactions using fluorescently tagged genes. Genetics. 2012 Mar;190(3):931-40. PMCID: PMC3296255.

219. Kusche-Gullberg M, Nybakken K, Perrimon N, Lindahl U. Drosophila heparan sulfate, a novel design. J Biol Chem. 2012 Jun 22;287(26):21950-6. PMCID: PMC3381155.

220. Katewa SD, Demontis F, Kolipinski M, Hubbard A, Gill MS, Perrimon N, Melov S, Kapahi P. Intramyocellular fatty-acid metabolism plays a critical role in mediating responses to dietary restriction in Drosophila melanogaster. Cell Metab. 2012 Jul 3;16(1):97-103. PMCID: PMC3400463.

221. Bejarano F, Bortolamiol-Becet D, Dai Q, Sun K, Saj A, Chou YT, Raleigh DR, Kim K, Ni JQ, Duan H, Yang JS, Fulga TA, Van Vactor D, Perrimon N, Lai EC. A genome-wide transgenic resource for conditional expression of Drosophila microRNAs. Development. 2012 Aug;139(15):2821-31. PMCID: PMC3392707.

222. Hosur R, Peng J, Vinayagam A, Stelzl U, Xu J, Perrimon N, Bienkowska J, Berger B. A computational framework for boosting confidence in high-throughput protein-protein interaction datasets. Genome Biol. 2012 Aug 31;13(8):R76. PMCID: PMC4053744.

223. Rajan A, Perrimon N. Drosophila cytokine unpaired 2 regulates physiological homeostasis by remotely controlling insulin secretion. Cell. 2012 Sep 28;151(1):123-37. Erratum in: Cell. 2013 Feb 28;152(5):1197. PMCID: PMC3475207.

224. Stender JD, Pascual G, Liu W, Kaikkonen MU, Do K, Spann NJ, Boutros M, Perrimon N, Rosenfeld MG, Glass CK. Control of proinflammatory gene programs by regulated trimethylation and demethylation of histone H4K20. Mol Cell. 2012 Oct 12;48(1):28-38. PMCID: PMC3472359.

225. Staller MV, Yan D, Randklev S, Bragdon MD, Wunderlich ZB, Tao R, Perkins LA, Depace AH, Perrimon N. Depleting gene activities in early Drosophila embryos with the "maternal-Gal4-shRNA" system. Genetics. 2013 Jan;193(1):51-61. PMCID: PMC3527254.

226. Yeh JT, Binari R, Gocha T, Dasgupta R, Perrimon N. PAPTi: a peptide aptamer interference toolkit for perturbation of protein-protein interaction networks. Sci Rep. 2013;3:1156. PMCID: PMC3557448.

227. Bergwitz C, Wee MJ, Sinha S, Huang J, DeRobertis C, Mensah LB, Cohen J, Friedman A, Kulkarni M, Hu Y, Vinayagam A, Schnall-Levin M, Berger B, Perkins LA, Mohr SE, Perrimon N. Genetic determinants of phosphate response in Drosophila. PLoS One. 2013;8(3):e56753. PMCID: PMC3592877.

228. Pitsouli C, Perrimon N. The homeobox transcription factor cut coordinates patterning and growth during Drosophila airway remodeling. Sci Signal. 2013 Feb 19;6(263):ra12. PMCID: PMC3982146.

229. Vinayagam A, Hu Y, Kulkarni M, Roesel C, Sopko R, Mohr SE, Perrimon N. Protein complex-based analysis framework for high-throughput data sets. Sci Signal. 2013 Feb 26;6(264):rs5. PMCID: PMC3756668.

230. Roti G, Carlton A, Ross KN, Markstein M, Pajcini K, Su AH, Perrimon N, Pear WS, Kung AL, Blacklow SC, Aster JC, Stegmaier K. Complementary genomic screens identify SERCA as a therapeutic target in NOTCH1 mutated cancer. Cancer Cell. 2013 Mar 18;23(3):390-405. PMCID: PMC3709972.

231. Karpowicz P, Zhang Y, Hogenesch JB, Emery P, Perrimon N. The circadian clock gates the intestinal stem cell regenerative state. Cell Rep. 2013 Apr 25;3(4):996-1004. PMCID: PMC3982394.

232. Silva-Ayala D, López T, Gutiérrez M, Perrimon N, López S, Arias CF. Genome-wide RNAi screen reveals a role for the ESCRT complex in rotavirus cell entry. Proc Natl Acad Sci U S A. 2013 Jun 18;110(25):10270-5. PMCID: PMC3690850.

233. Yin Z, Sadok A, Sailem H, McCarthy A, Xia X, Li F, Garcia MA, Evans L, Barr AR, Perrimon N, Marshall CJ, Wong ST, Bakal C. A screen for morphological complexity identifies regulators of switch-like transitions between discrete cell shapes. Nat Cell Biol. 2013 Jul;15(7):860-71. PMCID: PMC3712499.

234. Neumüller RA, Gross T, Samsonova AA, Vinayagam A, Buckner M, Founk K, Hu Y, Sharifpoor S, Rosebrock AP, Andrews B, Winston F, Perrimon N. Conserved regulators of nucleolar size revealed by global phenotypic analyses. Sci Signal. 2013 Aug 20;6(289):ra70. PMCID: PMC3964804.

235. Hu Y, Roesel C, Flockhart I, Perkins L, Perrimon N, Mohr SE. UP-TORR: online tool for accurate and Up-to-Date annotation of RNAi Reagents. Genetics. 2013 Sep;195(1):37-45. PMCID: PMC3761311.


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236. Hu Y, Sopko R, Foos M, Kelley C, Flockhart I, Ammeux N, Wang X, Perkins L, Perrimon N, Mohr SE. FlyPrimerBank: an online database for Drosophila melanogaster gene expression analysis and knockdown evaluation of RNAi reagents. G3 (Bethesda). 2013 Sep 4;3(9):1607-16. PMCID: PMC3755921.

237. Xiong XP, Kurthkoti K, Chang KY, Lichinchi G, De N, Schneemann A, MacRae IJ, Rana TM, Perrimon N, Zhou R. Core small nuclear ribonucleoprotein particle splicing factor SmD1 modulates RNA interference in Drosophila. Proc Natl Acad Sci U S A. 2013 Oct 8;110(41):16520-5. PMCID: PMC3799365.

238. Owusu-Ansah E, Song W, Perrimon N. Muscle mitohormesis promotes longevity via systemic repression of insulin signaling. Cell. 2013 Oct 24;155(3):699-712. PMCID: PMC3856681.

239. Zirin J, Nieuwenhuis J, Perrimon N. Role of autophagy in glycogen breakdown and its relevance to chloroquine myopathy. PLoS Biol. 2013 Nov;11(11):e1001708. PMCID: PMC3825659.

240. Sun X, Hong P, Kulkarni M, Kwon Y, Perrimon N. PPIRank - an advanced method for ranking protein-protein interations in TAP/MS data. Proteome Sci. 2013 Nov 7;11(Suppl 1):S16. PMCID: PMC3908380.

241. Kwon Y, Vinayagam A, Sun X, Dephoure N, Gygi SP, Hong P, Perrimon N. The Hippo signaling pathway interactome. Science. 2013 Nov 8;342(6159):737-40. PMCID: PMC3951131.

242. Zirin J, Cheng D, Dhanyasi N, Cho J, Dura JM, Vijayraghavan K, Perrimon N. Ecdysone signaling at metamorphosis triggers apoptosis of Drosophila abdominal muscles. Dev Biol. 2013 Nov 15;383(2):275-84. PMCID: PMC3991436.

243. Ren X, Sun J, Housden BE, Hu Y, Roesel C, Lin S, Liu LP, Yang Z, Mao D, Sun L, Wu Q, Ji JY, Xi J, Mohr SE, Xu J, Perrimon N, Ni JQ. Optimized gene editing technology for Drosophila melanogaster using germ line-specific Cas9. Proc Natl Acad Sci U S A. 2013 Nov 19;110(47):19012-7. PMCID: PMC3839733.

244. Vinayagam A, Zirin J, Roesel C, Hu Y, Yilmazel B, Samsonova AA, Neumüller RA, Mohr SE, Perrimon N. Integrating protein-protein interaction networks with phenotypes reveals signs of interactions. Nat Methods. 2014 Jan;11(1):94-9. PMCID: PMC3877743.

245. Shulman JM, Imboywa S, Giagtzoglou N, Powers MP, Hu Y, Devenport D, Chipendo P, Chibnik LB, Diamond A, Perrimon N, Brown NH, De Jager PL, Feany MB. Functional screening in Drosophila identifies Alzheimer's disease susceptibility genes and implicates Tau-mediated mechanisms. Hum Mol Genet. 2014 Feb 15;23(4):870-7. PMCID: PMC3900103.

246. Yan D, Neumüller RA, Buckner M, Ayers K, Li H, Hu Y, Yang-Zhou D, Pan L, Wang X, Kelley C, Vinayagam A, Binari R, Randklev S, Perkins LA, Xie T, Cooley L, Perrimon N. A regulatory network of Drosophila germline stem cell self-renewal. Dev Cell. 2014 Feb 24;28(4):459-73. PMCID: PMC3998650.

247. Markstein M, Dettorre S, Cho J, Neumüller RA, Craig-Müller S, Perrimon N. Systematic screen of chemotherapeutics in Drosophila stem cell tumors. Proc Natl Acad Sci U S A. 2014 Mar 25;111(12):4530-5. PMCID: PMC3970492.

248. Griffin R, Binari R, Perrimon N. Genetic odyssey to generate marked clones in Drosophila mosaics. Proc Natl Acad Sci U S A. 2014 Apr 1;111(13):4756-63. PMCID: PMC3977257.

249. Demontis F, Patel VK, Swindell WR, Perrimon N. Intertissue control of the nucleolus via a myokine-dependent longevity pathway. Cell Rep. 2014 Jun 12;7(5):1481-94. PMCID: PMC4125979.

250. Yilmazel B, Hu Y, Sigoillot F, Smith JA, Shamu CE, Perrimon N, Mohr SE. Online GESS: prediction of miRNA-like off-target effects in large-scale RNAi screen data by seed region analysis. BMC Bioinformatics. 2014 Jun 17;15:192. PMCID: PMC4073188.

251. Kim K, Vinayagam A, Perrimon N. A rapid genome-wide microRNA screen identifies miR-14 as a modulator of Hedgehog signaling. Cell Rep. 2014 Jun 26;7(6):2066-77. PMCID: PMC4142207.

252. Brown JB, Boley N, Eisman R, May GE, Stoiber MH, Duff MO, Booth BW, Wen J, Park S, Suzuki AM, Wan KH, Yu C, Zhang D, Carlson JW, Cherbas L, Eads BD, Miller D, Mockaitis K, Roberts J, Davis CA, Frise E, Hammonds AS, Olson S, Shenker S, Sturgill D, Samsonova AA, Weiszmann R, Robinson G, Hernandez J, Andrews J, Bickel PJ, Carninci P, Cherbas P, Gingeras TR, Hoskins RA, Kaufman TC, Lai EC, Oliver B, Perrimon N, Graveley BR, Celniker SE. Diversity and dynamics of the Drosophila transcriptome. Nature. 2014 Aug 28;512(7515):393-9. PMCID: PMC4152413.

253. Gerstein MB, Rozowsky J, Yan KK, Wang D, Cheng C, Brown JB, Davis CA, Hillier L, Sisu C, Li JJ, Pei B, Harmanci AO, Duff MO, Djebali S, Alexander RP, Alver BH, Auerbach R, Bell K, Bickel PJ, Boeck ME, Boley NP, Booth BW, Cherbas L, Cherbas P, Di C, Dobin A, Drenkow J, Ewing B, Fang G, Fastuca M, Feingold EA, Frankish A, Gao G, Good PJ, Guigó R, Hammonds A, Harrow J, Hoskins RA, Howald C, Hu L, Huang H, Hubbard TJ, Huynh C, Jha S, Kasper D, Kato M, Kaufman TC, Kitchen RR, Ladewig E, Lagarde J, Lai E, Leng J, Lu Z, MacCoss M, May G, McWhirter R, Merrihew G, Miller DM, Mortazavi A,


17

Murad R, Oliver B, Olson S, Park PJ, Pazin MJ, Perrimon N, Pervouchine D, Reinke V, Reymond A, Robinson G, Samsonova A, Saunders GI, Schlesinger F, Sethi A, Slack FJ, Spencer WC, Stoiber MH, Strasbourger P, Tanzer A, Thompson OA, Wan KH, Wang G, Wang H, Watkins KL, Wen J, Wen K, Xue C, Yang L, Yip K, Zaleski C, Zhang Y, Zheng H, Brenner SE, Graveley BR, Celniker SE, Gingeras TR, Waterston R. Comparative analysis of the transcriptome across distant species. Nature. 2014 Aug 28;512(7515):445-8. PMCID: PMC4155737.

254. Song W, Veenstra JA, Perrimon N. Control of lipid metabolism by tachykinin in Drosophila. Cell Rep. 2014 Oct 9;9(1):40-7. PMCID: PMC4325997.

255. Amcheslavsky A, Song W, Li Q, Nie Y, Bragatto I, Ferrandon D, Perrimon N, Ip YT. Enteroendocrine cells support intestinal stem-cell-mediated homeostasis in Drosophila. Cell Rep. 2014 Oct 9;9(1):32-9. PMCID: PMC4198943.

256. Sopko R, Foos M, Vinayagam A, Zhai B, Binari R, Hu Y, Randklev S, Perkins LA, Gygi SP, Perrimon N. Combining genetic perturbations and proteomics to examine kinase-phosphatase networks in Drosophila embryos. Dev Cell. 2014 Oct 13;31(1):114-27. PMCID: PMC4208667.

257. Leshchiner ES, Parkhitko A, Bird GH, Luccarelli J, Bellairs JA, Escudero S, Opoku-Nsiah K, Godes M, Perrimon N, Walensky LD. Direct inhibition of oncogenic KRAS by hydrocarbon-stapled SOS1 helices. Proc Natl Acad Sci U S A. 2015 Feb 10;112(6):1761-6. PMCID: PMC4330742.

258. Zirin J, Nieuwenhuis J, Samsonova A, Tao R, Perrimon N. Regulators of autophagosome formation in Drosophila muscles. PLoS Genet. 2015 Feb 18;11(2):e1005006. eCollection 2015. PMCID: PMC4334200.

259. Sopko R, Lin YB, Makhijani K, Alexander B, Perrimon N, Brückner K. A systems-level interrogation identifies regulators of Drosophila blood cell lifespan. PLoS Genet. 2015 Mar 6;11(3):e1005056. eCollection 2015. PMCID: PMC4352040.

260. Chavez A, Scheiman J, Vora S, Pruitt BW, Tuttle M, Iyer EPR, Kiani S, Guzman CD, Wiegand DJ, Ter-Ovanesyan D, Braff JL, Davidsohn N, Housden BE, Perrimon N, Weiss R, Aach J, Collins JJ, Church GM. Highly efficient Cas9-mediated transcriptional programming. Nat Methods. 2015 Apr;12(4):326-8. PMCID: PMC4393883.

261. Kwon Y, Song W, Droujinine IA, Hu Y, Asara JM, Perrimon N. Systemic organ wasting induced by localized expression of the secreted Insulin/IGF antagonist ImpL2. Dev Cell. 2015 Apr 6;33(1):36-46. PMCID: PMC4437243.

262. Fulga TA, McNeill EM, Binari R, Yelick J, Blanche A, Booker M, Steinkraus BR, Schnall-Levin M, Zhao Y, DeLuca T, Bejarano F, Han Z, Lai EC, Wall DP, Perrimon N, Van Vactor D. A transgenic resource for conditional competitive inhibition of conserved Drosophila microRNAs. Nat Commun. 2015 Jun 17;6:7279. PMCID: PMC4471878.

263. Gordon WR, Zimmerman B, He L, Miles LJ, Huang J, Tiyanont K, McArthur DG, Aster JC, Perrimon N, Loparo JJ, Blacklow SC. Mechanical Allostery: Evidence for a Force Requirement in the Proteolytic Activation of Notch. Dev Cell. 2015 Jun 22;33(6):729-36. PMCID: PMC4481192.

264. Hu Y, Comjean A, Perkins LA, Perrimon N, Mohr SE. GLAD: an Online Database of Gene List Annotation for Drosophila. J Genomics. 2015 Jul 1;3:75-81. eCollection 2015. PMCID: PMC4495321.

265. Mohr SE, Hu Y, Rudd K, Buckner M, Gilly Q, Foster B, Sierzputowska K, Comjean A, Ye B, Perrimon N. Reagent and Data Resources for Investigation of RNA Binding Protein Functions in Drosophila melanogaster Cultured Cells. G3 (Bethesda). 2015 Jul 21;5(9):1919-24. PMCID: PMC4555228.

266. Lin S, Ewen-Campen B, Ni X, Housden BE, Perrimon N. In Vivo Transcriptional Activation Using CRISPR-Cas9 in Drosophila. Genetics. 2015 Oct;201(2):433-42. PMCID: PMC4596659.

267. Housden BE, Valvezan AJ, Kelley C, Sopko R, Hu Y, Roesel C, Lin S, Buckner M, Tao R, Yilmazel B, Mohr SE, Manning BD, Perrimon N. Identification of potential drug targets for tuberous sclerosis complex by synthetic screens combining CRISPR-based knockouts with RNAi. Sci Signal. 2015 Sep 8;8(393):rs9. PMCID: PMC4642709.

268. Yan D, Perrimon N. Spenito is required for sex determination in Drosophila. Proc Natl Acad Sci U S A. 2015 Sep 15;112(37):11606-11. PMCID: PMC4577178.

269. Chen C-L, Hu Y, Udeshi ND, Lau TY, Wirtz-Peitz F, He L, Ting AY, Carr SA, Perrimon N. Proteomic mapping in live Drosophila tissues using an engineered ascorbate peroxidase. Proc Natl Acad Sci U S A. 2015 Sep 29;112(39):12093-8. PMCID: PMC4593093.


18

270. Dequéant M-L, Fagegaltier D, Hu Y, Spirohn K, Simcox A, Hannon GJ, Perrimon N. Discovery of progenitor cell signatures by time-series synexpression analysis during Drosophila embryonic cell immortalization. Proc Natl Acad Sci U S A. 2015 Oct 20;112(42):12974-9. PMCID: PMC4620889.

271. Perkins LA, Holderbaum L, Tao R, Hu Y, Sopko R, McCall K, Yang-Zhou D, Flockhart I, Binari R, Shim HS, Miller A, Housden A, Foos M, Randkelv S, Kelley C, Namgyal P, Villalta C, Liu LP, Jiang X, Huan-Huan Q, Wang X, Fujiyama A, Toyoda A, Ayers K, Blum A, Czech B, Neumuller R, Yan D, Cavallaro A, Hibbard K, Hall D, Cooley L, Hannon GJ, Lehmann R, Parks A, Mohr SE, Ueda R, Kondo S, Ni JQ, Perrimon N. The Transgenic RNAi Project at Harvard Medical School: Resources and Validation. Genetics. 2015 Nov;201(3):843-52. PMCID: PMC4649654.

272. Kuhn H, Sopko R, Coughlin M, Perrimon N, Mitchison T. The Atg1-Tor pathway regulates yolk catabolism in Drosophila embryos. Development. 2015 Nov 15;142(22):3869-78. PMCID: PMC4712880.

273. Jodoin JN, Coravos JS, Chanet S, Vasquez CG, Tworoger M, Kingston ER, Perkins LA, Perrimon N, Martin AC. Stable force balance between epithelial cells arises from F-Actin turnover. Dev Cell. 2015 Dec 21;35(6):685-97. PMCID: PMC4699402.

274. Breitkopf SB, Yang X, Begley MJ, Kulkarni M, Chiu Y-H, Turke AB, Lauriol J, Yuan M, Qi J, Engelman JA, Hong P, Kontaridis MI, Cantley LC, Perrimon N, Asara JM. A Cross-Species Study of PI3K Protein-Protein Interactions Reveals the Direct Interaction of P85 and SHP2. Sci Rep. 2016 Feb 3;6:20471. PMCID: PMC4738311.

275. Ma M, Zhao H, Zhao H, Binari R, Perrimon N, Li Z. Wildtype adult stem cells, unlike tumor cells, are resistant to cellular damages in Drosophila. Dev Biol. 2016 Mar 15;411(2):207-16. PMCID: PMC5206756.

276. Vinayagam A, Gibson TE, Lee H-J, Yilmazel B, Roesel C, Hu Y, Kwon Y, Sharma A, Liu YY, Perrimon N, Barabási AL. Controllability analysis of the directed human protein interaction network identifies disease genes and drug targets. Proc Natl Acad Sci U S A. 2016 May 3;113(18):4976-81. PMCID: PMC4983807.

277. Harris KP, Zhang YV, Piccioli ZD, Perrimon N, Littleton TJ. The postsynaptic t-SNARE Syntaxin 4 controls traffic of Neuroligin 1 and Synaptotagmin 4 to regulate retrograde signaling. Elife. 2016 May 25;5. pii: e13881. PMCID: PMC4880446.

278. De Lella Ezcurra AL, Bertolin AP, Kim K, Katz MJ, Gándara L, Misra T, Luschnig S, Perrimon N, Melani M, Wappner P. miR-190 Enhances HIF-Dependent Responses to Hypoxia in Drosophila by Inhibiting the Prolyl-4-hydroxylase Fatiga. PLoS Genet. 2016 May 25;12(5):e1006073. PMCID: PMC4880290.

279. Parkhitko AA, Binari R, Zhang N, Asara JM, Demontis F, Perrimon N. Tissue-specific down-regulation of S-adenosyl-homocysteine via suppression of dAhcyL1/dAhcyL2 extends health span and life span in Drosophila. Genes Dev. 2016 Jun 15;30(12):1409-22. PMCID: PMC4926864.

280. Chavez A, Tuttle M, Pruitt BW, Ewen-Campen B, Chari R, Ter-Ovanesyan D, Haque SJ, Cecchi RJ, Kowal EJ, Buchthal J, Housden BE, Perrimon N, Collins JJ, Church G. Comparison of Cas9 activators in multiple species. Nat Methods. 2016 Jul;13(7):563-7. PMCID: PMC4927356.

281. Hunter GL, Hadjivasiliou Z, Bonin H, He L, Perrimon N, Charras G, Baum B. Coordinated control of Notch/Delta signalling and cell cycle progression drives lateral inhibition-mediated tissue patterning. Development. 2016 Jul 1;143(13):2305-10. PMCID: PMC4958321.

282. Fagegaltier D, Falciatori I, Czech B, Castel S, Perrimon N, Simcox A, Hannon GJ. Oncogenic transformation of Drosophila somatic cells induces a functional piRNA pathway. Genes Dev. 2016 Jul 15;30(14):1623-35. PMCID: PMC4973292.

283. Wang H, Becuwe M, Housden BE, Chitraju C, Porras AJ, Graham MM, Liu XN, Thiam AR, Savage DB, Agarwal AK, Garg A, Olarte MJ, Lin Q, Fröhlich F, Hannibal-Bach HK, Upadhyayula S, Perrimon N, Kirchhausen T, Ejsing CS, Walther TC, Farese RV. Seipin is required for converting nascent to mature lipid droplets. Elife. 2016 Aug 26;5. pii: e16582. PMCID: PMC5035145.

284. Ammeux N, Housden BE, Georgiadis A, Hu Y, Perrimon N. Mapping signaling pathway cross-talk in Drosophila cells. Proc Natl Acad Sci U S A. 2016 Aug 30;113(35):9940-5. PMCID: PMC5024637.

285. Vinayagam A, Kulkarni MM, Sopko R, Sun X, Hu Y, Nand A, Villalta C, Moghimi A, Yang X, Mohr SE, Hong P, Asara JM, Perrimon N. An Integrative Analysis of the InR/PI3K/Akt Network Identifies the Dynamic Response to Insulin Signaling. Cell Rep. 2016 Sep 13;16(11):3062-74. PMCID: PMC5033061.

286. Kim K, Hung RJ, Perrimon N. miR-263a Regulates ENaC to Maintain Osmotic and Intestinal Stem Cell Homeostasis in Drosophila. Dev Cell. 2017 Jan 9;40(1):23-36. PMCID: PMC5224988.


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287. Song W, Cheng D, Hong S, Sappe-Baut B, Hu Y, Wei N, Zhu C, O’Connor M, Pissios P, Perrimon N. Midgut-Derived Activin Regulates Glucagon-like Action in the Fat Body and Glycemic Control. Cell Metabolism. Cell Metab. 2017 Feb 7;25(2):386-399. PMCID: PMC5373560.

288. Yeh JT, Nam K, Yeh JT, Perrimon N. eUnaG: a new ligand-inducible fluorescent reporter to detect drug transporter activity in live cells. Sci Rep. 2017 Feb 8;7:41619. PMCID: PMC5296874.

289. Hu Y, Comjean A, Perrimon N, Mohr SE. The Drosophila Gene Expression Tool (DGET) for expression analyses. BMC Bioinformatics. 2017 Feb 10;18(1):98. PMCID: PMC5303223.

290. He L, Huang J, Perrimon N. Development of an optimized synthetic Notch receptor as an in vivo cell-cell contact sensor. Proc Natl Acad Sci U S A. 2017 May 23;114(21):5467-5472. PMCID: PMC5448223.

291. Xu C, Luo J, He L, Montell C, Perrimon N. Oxidative stress induces stem cell proliferation via TRPA1/RyR mediated Ca2+ signaling in the Drosophila midgut. Elife. 2017 May 31;6. pii: e22441. PMCID: PMC5451214.

292. Wang J, Al-Ouran R, Hu Y, Kim SY, Wan YW, Wangler MF, Yamamoto S, Chao HT, Comjean A, Mohr SE, UDN, Perrimon N, Liu Z, Bellen HJ. MARRVEL: Integration of Human and Model Organism Genetic Resources to Facilitate Functional Annotation of the Human Genome. Am J Hum Genet. 2017 Jun 1;100(6):843-853. PMCID: PMC5670038.

293. Kang J, Shin S, Perrimon N, Shen J. An Evolutionarily Conserved Role of Presenilin in Neuronal Protection in the Aging Drosophila Brain. Genetics. 2017 Jul;206(3):1479-1493. PMCID: PMC5500145.

294. Song W, Owusu-Ansah E, Hu Y, Cheng D, Ni X, Zirin J, Perrimon N. Activin signaling mediates muscle-to-adipose communication in a mitochondria dysfunction-associated obesity model. Proc Natl Acad Sci U S A. 2017 Jul 24. PMCID: PMC5559048.

295. Lee HJ, Jedrychowski MP, Vinayagam A, Wu N, Shyh-Chang N, Hu Y, Min-Wen C, Moore JK, Asara JM, Lyssiotis CA, Perrimon N, Gygi SP, Cantley LC, Kirschner MW. Proteomic and Metabolomic Characterization of a Mammalian Cellular Transition from Quiescence to Proliferation. Cell Rep. 2017 Jul 18;20(3):721-736. PMCID: PMC5626450.

296. Ewen-Campen B, Yang-Zhou D, Fernandes VR, González DP, Liu LP, Tao R, Ren X, Sun J, Hu Y, Zirin J, Mohr SE, Ni JQ, Perrimon N. Optimized strategy for in vivo Cas9-activation in Drosophila. Proc Natl Acad Sci U S A. 2017 Aug 29;114(35):9409-9414. PMCID: PMC5584449.

297. Rajan A, Housden BE, Wirtz-Peitz F, Holderbaum L, Perrimon N. A Mechanism Coupling Systemic Energy Sensing to Adipokine Secretion. Dev Cell. 2017 Oct 9;43(1):83-98.e6. PMCID: PMC5650192.

298. Valvezan AJ, Turner M, Belaid A, Lam HC, Miller SK, McNamara MC, Baglini C, Housden BE, Perrimon N, Kwiatkowski DJ, Asara JM, Henske EP, Manning BD. mTORC1 Couples Nucleotide Synthesis to Nucleotide Demand Resulting in a Targetable Metabolic Vulnerability. Cancer Cell. 2017 Nov 13;32(5):624-638.e5. PMCID: PMC5687294.

299. Hu Y, Vinayagam A, Nand A, Comjean A, Chung V, Hao T, Mohr SE, Perrimon N. Molecular Interaction Search Tool (MIST): an integrated resource for mining gene and protein interaction data. Nucleic Acids Res. 2018 Jan 4;46(D1):D567-D574. PMCID: PMC5753374.

300. Mohr SE, Rudd K, Hu Y, Song WR, Gilly Q, Buckner M, Housden BE, Kelley C, Zirin J, Tao R, Amador G, Sierzputowska K, Comjean A, Perrimon N. Zinc Detoxification: A Functional Genomics and Transcriptomics Analysis in Drosophila melanogaster Cultured Cells. G3 (Bethesda). 2018 Feb 2;8(2):631-641. PMCID: PMC Journal – In Process.

301. Guo J, Tang HW, Li J, Perrimon N, Yan D. Xio is a component of the Drosophila sex determination pathway and RNA N6-methyladenosine methyltransferase complex. Proc Natl Acad Sci U S A. 2018 Mar 19. pii: 201720945. PMCID: PMC Journal – In Process.

302. Lee PT, Zirin J, Kanca O, Lin WW, Schulze KL, Li-Kroeger D, Tao R, Devereaux C, Hu Y, Chung V, Fang Y, He Y, Pan H, Ge M, Zuo Z, Housden BE, Mohr SE, Yamamoto S, Levis RW, Spradling AC, Perrimon N, Bellen HJ. A gene-specific T2A-GAL4 library for Drosophila. Elife. 2018 Mar 22;7. pii: e35574. PMC Journal – In Process.

Reviews

1. Siegfried E, Ambrosio L, Perrimon N. Serine/threonine protein kinases in Drosophila. Trends Genet. 1990 Nov;6(11):357-62. PMCID: N.A.


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2. Finkelstein R, Perrimon N. The molecular genetics of head development in Drosophila melanogaster. Development. 1991 Aug;112(4):899-912. PMCID: N.A.

3. Perkins LA, Perrimon N. The molecular genetics of tail development in Drosophila melanogaster. In Vivo. 1991 Sep-Oct;5(5):521-31. PMCID: N.A.

4. Lu X, Perkins LA, Perrimon N. The torso pathway in Drosophila: a model system to study receptor tyrosine kinase signal transduction. Dev Suppl. 1993:47-56. PMCID: N.A.

5. van den Heuvel M, Klingensmith J, Perrimon N, Nusse R. Cell patterning in the Drosophila segment: engrailed and wingless antigen distributions in segment polarity mutant embryos. Dev Suppl. 1993:105-14. PMCID: N.A.

6. Noll E, Perkins LA, Mahowald AP, Perrimon N. Approaches to identify genes involved in Drosophila embryonic CNS development. J Neurobiol. 1993 Jun;24(6):701-22. PMCID: N.A.

7. Perrimon N. The torso receptor protein-tyrosine kinase signaling pathway: an endless story. Cell. 1993 Jul 30;74(2):219-22. PMCID: N.A.

8. Perrimon N. The genetic basis of patterned baldness in Drosophila. Cell. 1994 Mar 11;76(5):781-4. PMCID: N.A.

9. Siegfried E, Perrimon N. Drosophila wingless: a paradigm for the function and mechanism of Wnt signaling. Bioessays. 1994;16 (6) :395-404. PMCID: N.A.

10. Perrimon N, Desplan C. Signal transduction in the early Drosophila embryo: when genetics meets biochemistry. Trends Biochem Sci. 1994;19 (11) :509-13. PMCID: N.A.

11. Perrimon N. Signalling pathways initiated by receptor protein tyrosine kinases in Drosophila. Curr Opin Cell Biol. 1994 Apr;6(2):260-6. PMCID: N.A.

12. Duffy JB, Perrimon N. The torso pathway in Drosophila: lessons on receptor tyrosine kinase signaling and pattern formation. Dev Biol. 1994 Dec;166(2):380-95. PMCID: N.A.

13. Perrimon N. Hedgehog and beyond. Cell. 1995 Feb 24;80(4):517-20. PMCID: N.A.

14. Perrimon N, Lu X, Hou XS, Hsu JC, Melnick MB, Chou TB, Perkins LA. Dissection of the Torso signal transduction pathway in Drosophila. Mol Reprod Dev. 1995 Dec;42(4):515-22. PMCID: N.A.

15. Duffy JB, Perrimon N. Recent advances in understanding signal transduction pathways in worms and flies. Curr Opin Cell Biol. 1996 Apr;8(2):231-8. PMCID: N.A.

16. Perrimon N. Serpentine proteins slither into the wingless and hedgehog fields. Cell. 1996 Aug 23;86(4):513-6. PMCID: N.A.

17. Bellaiche Y, Perrimon N. [La voie de signalisation Wingless chez la Drosophile] (French). Medecine Sciences. 1997;13 :165-174. PMCID: N.A.

18. Hou XS, Perrimon N. The JAK-STAT pathway in Drosophila. Trends Genet. 1997 Mar;13(3):105-10. PMCID: N.A.

19. Perrimon N, Perkins LA. There must be 50 ways to rule the signal: the case of the Drosophila EGF receptor. Cell. 1997 Apr 4;89(1):13-6. PMCID: N.A.

20. Perrimon N. Creating mosaics in Drosophila. Int J Dev Biol. 1998;42(3):243-7. PMCID: N.A.

21. Mathey-Prevot B, Perrimon N. Mammalian and Drosophila blood: JAK of all trades? Cell. 1998 Mar 20;92(6):697-700. PMCID: N.A.

22. Perrimon N. Editorial. Methods. 1998 Apr;14(4):353. PMCID: N.A.

23. Perrimon N, Nusse R. Highlights of the 1998 Wnt meeting, Cambridge, MA, January 9-11. Biochim Biophys Acta. 1998 Jun 19;1377(3):R45-9. PMCID: N.A.

24. Perrimon N. New advances in Drosophila provide opportunities to study gene functions. Proc Natl Acad Sci U S A. 1998 Aug 18;95(17):9716-7. PMCID: PMC33881.

25. Shulman JM, Perrimon N, Axelrod JD. Frizzled signaling and the developmental control of cell polarity. Trends Genet. 1998 Nov;14(11):452-8. PMCID: N.A.

26. Perrimon N, Duffy JB. Developmental biology. Sending all the right signals. Nature. 1998 Nov 5;396(6706):18-9. PMCID: N.A.

27. Perrimon N, McMahon AP. Negative feedback mechanisms and their roles during pattern formation. Cell. 1999 Apr 2;97(1):13-6. PMCID: N.A.

28. Spana E, Perrimon N. The latest in signal transduction, 1999. Specificity in Signal Transduction, Keystone, Colorado, USA, 9-14 April 1999. Trends Genet. 1999 Aug;15(8):301-2. PMCID: N.A.


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29. Perrimon N, Stern C. Pattern formation and developmental mechanisms unresolved issues of pattern formation. Curr Opin Genet Dev. 1999 Aug;9(4):387-9. PMCID: N.A.

30. Stronach BE, Perrimon N. Stress signaling in Drosophila. Oncogene. 1999 Nov 1;18(45):6172-82. PMCID: N.A.

31. Bellaiche Y, The I, Perrimon N. [Role des proteoglycanes dans la distribution du facteur secrete Hedgehog] (French). Medecine Sciences. 2000;2 :250-252. PMCID: N.A.

32. Perrimon N, Bernfield M. Specificities of heparan sulphate proteoglycans in developmental processes. Nature. 2000 Apr 13;404(6779):725-8. PMCID: N.A.

33. Boutros M, Perrimon N. Drosophila genome takes flight. Nat Cell Biol. 2000 Apr;2(4):E53-4. PMCID: N.A.

34. The I, Perrimon N. Morphogen diffusion: the case of the wingless protein. Nat Cell Biol. 2000 May;2(5):E79-82. PMCID: N.A.

35. Zeidler MP, Bach EA, Perrimon N. The roles of the Drosophila JAK/STAT pathway. Oncogene. 2000 May 15;19(21):2598-606. PMCID: N.A.

36. Lin X, Perrimon N. Role of heparan sulfate proteoglycans in cell-cell signaling in Drosophila. Matrix Biol. 2000 Aug;19(4):303-7. PMCID: N.A.

37. Zeidler MP, Perrimon N. Sex determination: co-opted signals determine gender. Curr Biol. 2000 Sep 21;10(18):R682-4. PMCID: N.A.

38. Noselli S, Perrimon N. Signal transduction. Are there close encounters between signaling pathways? Science. 2000 Oct 6;290(5489):68-9. PMCID: N.A.

39. Baeg GH, Perrimon N. Functional binding of secreted molecules to heparan sulfate proteoglycans in Drosophila. Curr Opin Cell Biol. 2000 Oct;12(5):575-80. PMCID: N.A.

40. Selva EM, Perrimon N. Role of heparan sulfate proteoglycans in cell signaling and cancer. Adv Cancer Res. 2001;83:67-80. PMCID: N.A.

41. Perrimon N, Bernfield M. Cellular functions of proteoglycans--an overview. Semin Cell Dev Biol. 2001 Apr;12(2):65-7. PMCID: N.A.

42. Vincent S, Perrimon N. Developmental biology. Fishing for morphogens. Nature. 2001 May 31;411(6837):533, 535-6. PMCID: N.A.

43. Vincent S, Perkins LA, Perrimon N. Doublesex surprises. Cell. 2001 Aug 24;106(4):399-402. PMCID: N.A.

44. Lin X, Perrimon N. Developmental roles of heparan sulfate proteoglycans in Drosophila. Glycoconj J. 2002 May-Jun;19(4-5):363-8. PMCID: N.A.

45. Schöck F, Perrimon N. Molecular mechanisms of epithelial morphogenesis. Annu Rev Cell Dev Biol. 2002;18:463-93. PMCID: N.A.

46. Moon RT, Bowerman B, Boutros M, Perrimon N. The promise and perils of Wnt signaling through beta-catenin. Science. 2002 May 31;296(5573):1644-6. PMCID: N.A.

47. Schober M, Perrimon N. Unconventional ways to travel. Nat Cell Biol. 2002 Sep;4(9):E211-2. PMCID: N.A.

48. Nybakken K, Perrimon N. Hedgehog signal transduction: recent findings. Curr Opin Genet Dev. 2002 Oct;12(5):503-11. PMCID: N.A.

49. Nybakken K, Perrimon N. Heparan sulfate proteoglycan modulation of developmental signaling in Drosophila. Biochim Biophys Acta. 2002 Dec 19;1573(3):280-91. PMCID: N.A.

50. Hou SX, Zheng Z, Chen X, Perrimon N. The Jak/STAT pathway in model organisms: emerging roles in cell movement. Dev Cell. 2002 Dec;3(6):765-78. PMCID: N.A.

51. Perkins L, Perrimon N. Liz and Norbert at the movies. Development. 2003;130 (23) :5556-5557. PMCID: N.A.

52. Nagy A, Perrimon N, Sandmeyer S, Plasterk R. Tailoring the genome: the power of genetic approaches. Nat Genet. 2003 Mar;33 Suppl:276-84. PMCID: N.A.

53. Gibson MC, Perrimon N. Apicobasal polarization: epithelial form and function. Curr Opin Cell Biol. 2003 Dec;15(6):747-52. PMCID: N.A.

54. Perrimon N. [Le modèle américain] (French). Commentaire . 2004;106 :335-338. PMCID: N.A.

55. Agaisse H, Perrimon N. The roles of JAK/STAT signaling in Drosophila immune responses. Immunol Rev. 2004 Apr;198:72-82. PMCID: N.A.


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56. Friedman A, Perrimon N. Genome-wide high-throughput screens in functional genomics. Curr Opin Genet Dev. 2004 Oct;14(5):470-6. PMCID: N.A.

57. Dasgupta R, Perrimon N. Using RNAi to catch Drosophila genes in a web of interactions: insights into cancer research. Oncogene. 2004 Nov 1;23(51):8359-65. PMCID: N.A.

58. Armknecht S, Boutros M, Kiger A, Nybakken K, Mathey-Prevot B, Perrimon N. High-throughput RNA interference screens in Drosophila tissue culture cells. Methods Enzymol. 2005;392:55-73. PMCID: N.A.

59. DasGupta R, Boutros M, Perrimon N. Drosophila Wnt/Fz pathways. Sci STKE. 2005 May 10;2005(283):cm5. PMCID: N.A.

60. Kulkarni MM, Perrimon N. Super-size flies. Cell Metab. 2005 May;1(5):288-90. PMCID: N.A.

61. Häcker U, Nybakken K, Perrimon N. Heparan sulphate proteoglycans: the sweet side of development. Nat Rev Mol Cell Biol. 2005 Jul;6(7):530-41. PMCID: N.A.

62. Echeverri CJ, Perrimon N. High-throughput RNAi screening in cultured cells: a user's guide. Nat Rev Genet. 2006 May;7(5):373-84. PMCID: N.A.

63. Echeverri CJ, Beachy PA, Baum B, Boutros M, Buchholz F, Chanda SK, Downward J, Ellenberg J, Fraser AG, Hacohen N, Hahn WC, Jackson AL, Kiger A, Linsley PS, Lum L, Ma Y, Mathey-Prévôt B, Root DE, Sabatini DM, Taipale J, Perrimon N, Bernards R. Minimizing the risk of reporting false positives in large-scale RNAi screens. Nat Methods. 2006 Oct;3(10):777-9. PMCID: N.A.

64. Friedman A, Perrimon N. High-throughput approaches to dissecting MAPK signaling pathways. Methods. 2006 Nov;40(3):262-71. PMCID: N.A.

65. Perrimon N, Friedman A, Mathey-Prevot B, Eggert US. Drug-target identification in Drosophila cells: combining high-throughout RNAi and small-molecule screens. Drug Discov Today. 2007 Jan;12(1-2):28-33. PMCID: N.A.

66. Perrimon N, Mathey-Prevot B. Applications of high-throughput RNA interference screens to problems in cell and developmental biology. Genetics. 2007 Jan;175(1):7-16. PMCID: PMC1775003.

67. Friedman A, Perrimon N. Genetic screening for signal transduction in the era of network biology. Cell. 2007 Jan 26;128(2):225-31. PMCID: N.A.

68. Perrimon N, Mathey-Prevot B. Matter arising: off-targets and genome-scale RNAi screens in Drosophila. Fly (Austin). 2007 Jan-Feb;1(1):1-5. PMCID: N.A.

69. Mathey-Prevot B, Perrimon N. Do-it-yourself RNAi made easy? Nat Methods. 2007 Apr;4(4):308-9. PMCID: N.A.

70. Ramadan N, Flockhart I, Booker M, Perrimon N, Mathey-Prevot B. Design and implementation of high-throughput RNAi screens in cultured Drosophila cells. Nat Protoc. 2007;2(9):2245-64. PMCID: N.A.

71. Leopold P, Perrimon N. Drosophila and the genetics of the internal milieu. Nature. 2007 Nov 8;450(7167):186-8. PMCID: N.A.

72. Pitsouli C, Perrimon N. Developmental biology: Our fly cousins' gut. Nature. 2008 Jul 31;454(7204):592-3. PMCID: N.A.

73. Celniker SE, Dillon LA, Gerstein MB, Gunsalus KC, Henikoff S, Karpen GH, Kellis M, Lai EC, Lieb JD, MacAlpine DM, et al. Unlocking the secrets of the genome. Nature. 2009 Jun 18;459(7249):927-30. PMCID: PMC2843545.

74. Vinegoni C, Razansky D, Pitsouli C, Perrimon N, Ntziachristos V, Weissleder R. Mesoscopic fluorescence tomography for in-vivo imaging of developing Drosophila. J Vis Exp. 2009 Aug 20;(30). pii: 1510. PMCID: PMC2736679.

75. Bai J, Sepp KJ, Perrimon N. Culture of Drosophila primary cells dissociated from gastrula embryos and their use in RNAi screening. Nat Protoc. 2009;4(10):1502-12.

76. Pitsouli C, Apidianakis Y, Perrimon N. Homeostasis in infected epithelia: stem cells take the lead. Cell Host Microbe. 2009 Oct 22;6(4):301-7. PMCID: N.A.

77. Mohr S, Bakal C, Perrimon N. Genomic screening with RNAi: results and challenges. Annu Rev Biochem. 2010;79:37-64. PMCID: PMC3564595.

78. Bakal C, Perrimon N. Realizing the promise of RNAi high throughput screening. Dev Cell. 2010 Apr 20;18(4):506-7. PMCID: PMC2868582.

79. Rajan A, Perrimon N. Steroids make you bigger? Fat chance says Myc. Cell Metab. 2010 Jul 7;12(1):7-9. PMCID: N.A.


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80. Neumüller RA, Perrimon N. Where gene discovery turns into systems biology: genome-scale RNAi screens in Drosophila. Wiley Interdiscip Rev Syst Biol Med. 2011 Jul-Aug;3(4):471-8. PMCID: PMC3560415.

81. Karpowicz P, Perrimon N. All for one, and one for all: the clonality of the intestinal stem cell niche. F1000 Biol Rep. 2010 Oct 12;2:73. PMCID: PMC298962.

82. Zirin J, Perrimon N. Drosophila as a model system to study autophagy. Semin Immunopathol. 2010 Dec;32(4):363-72. PMCID: PMC3562086.

83. Perrimon N, Zirin J, Bai J. Primary cell cultures from Drosophila gastrula embryos. J Vis Exp. 2011 Feb 28;(48). pii: 2215. PMCID: PMC3197384.

84. Rajan A, Perrimon N. Drosophila as a model for interorgan communication: lessons from studies on energy homeostasis. Dev Cell. 2011 Jul 19;21(1):29-31. PMCID: PMC3560414.

85. Perrimon N, Barkai N. The era of systems developmental biology. Curr Opin Genet Dev. 2011 Dec;21(6):681-3. PMCID: N.A.

86. Mohr SE, Perrimon N. RNAi screening: new approaches, understandings, and organisms. Wiley Interdiscip Rev RNA. 2012 Mar-Apr;3(2):145-58. PMCID: PMC3249004.

87. Rajan A, Perrimon N. Of flies and men: insights on organismal metabolism from fruit flies. BMC Biol. 2013 Apr 15;11:38. PMCID: PMC3626883.

88. Zhou R, Mohr S, Hannon GJ, Perrimon N. Inducing RNAi in Drosophila cells by transfection with dsRNA. Cold Spring Harb Protoc. 2013 May 1;2013(5):461-3. PMCID: PMC4465107.

89. Demontis F, Piccirillo R, Goldberg AL, Perrimon N. Mechanisms of skeletal muscle aging: insights from Drosophila and mammalian models. Dis Model Mech. 2013 Nov;6(6):1339-52. PMCID: PMC3820258.

90. Droujinine IA, Perrimon N. Defining the interorgan communication network: systemic coordination of organismal cellular processes under homeostasis and localized stress. Front Cell Infect Microbiol. 2013 Nov 19;3:82. PMCID: PMC3832798.

91. Demontis F, Piccirillo R, Goldberg AL, Perrimon N. The influence of skeletal muscle on systemic aging and lifespan. Aging Cell. 2013 Dec;12(6):943-9. PMCID: PMC3838468.

92. Tipping M, Perrimon N. Drosophila as a model for context-dependent tumorigenesis. J Cell Physiol. 2014 Jan;229(1):27-33. PMCID: PMC4034382.

93. Piccirillo R, Demontis F, Perrimon N, Goldberg AL. Mechanisms of muscle growth and atrophy in mammals and Drosophila. Dev Dyn. 2014 Feb;243(2):201-15. PMCID: PMC3980484.

94. Owusu-Ansah E, Perrimon N. Modeling metabolic homeostasis and nutrient sensing in Drosophila: implications for aging and metabolic diseases. Dis Model Mech. 2014 Mar;7(3):343-50. PMCID: PMC3944494.

95. Doupé DP, Perrimon N. Visualizing and manipulating temporal signaling dynamics with fluorescence-based tools. Sci Signal. 2014 Apr 1;7(319):re1. PMCID: PMC4319366.

96. Mohr SE, Hu Y, Kim K, Housden BE, Perrimon N. Resources for functional genomics studies in Drosophila melanogaster. Genetics. 2014 May;197(1):1-18. PMCID: PMC4012471.

97. Zhou R, Mohr S, Hannon GJ, Perrimon N. Inducing RNAi in Drosophila cells by soaking with dsRNA. Cold Spring Harb Protoc. 2014 May 1;2014(5). pii: pdb.prot080747.

98. Mohr SE, Smith JA, Shamu CE, Neumüller RA, Perrimon N. RNAi screening comes of age: improved techniques and complementary approaches. Nat Rev Mol Cell Biol. 2014 Sep;15(9):591-600. PMCID: PMC4204798.

99. Droujinine IA, Yan D, Perrimon N. A sharp end to sugary Wingless travels. J Cell Biol. 2014 Sep 29;206(7):819-21. PMCID: PMC4178964.

100. Housden BE, Perrimon N. Spatial and temporal organization of signaling pathways. Trends Biochem Sci. 2014 Oct;39(10):457-64. PMCID: PMC4477539.

101. Owusu-Ansah E, Perrimon N. Stress signaling between organs in metazoa. Annu Rev Cell Dev Biol. 2015;31:497-522. PMCID N.A.

102. Housden BE, Perrimon N. Comparing CRISPR and RNAi-based screening technologies. Nat Biotechnol. 2016 Jun 9;34(6):621-3. PMCID N.A.

103. Sahin M, Henske EP, Manning BD, Ess KC, Bissler JJ, Klann E, Kwiatkowski DJ, Roberds SL, Silva AJ, Hillaire-Clarke CS, Young LR, Zervas M, Mamounas LA; Tuberous Sclerosis Complex Working Group to


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Update the Research Plan. Advances and Future Directions for Tuberous Sclerosis Complex Research: Recommendations From the 2015 Strategic Planning Conference. Pediatr Neurol. 2016 Jul;60:1-12. PMCID: PMC4921275.

104. Mohr SE, Hu Y, Ewen-Campen B, Housden BE, Viswanatha R, Perrimon N. CRISPR guide RNA design for research applications. FEBS J. 2016 Sep;283(17):3232-8. PMCID: PMC5014588.

105. Petsakou A, Perrimon N. "ISN't Thirst Sweet?" Says the Fly. Cell. 2016 Aug 11;166(4):796-7. PMCID N.A.

106. Housden BE, Perrimon N. Cas9-Mediated Genome Engineering in Drosophila melanogaster. Cold Spring Harb Protoc. 2016 Sep 1;2016(9):pdb.top086843.

107. Housden BE, Perrimon N. Detection of Indel Mutations in Drosophila by High-Resolution Melt Analysis (HRMA). Cold Spring Harb Protoc. 2016 Sep 1;2016(9):pdb.prot090795.

108. Housden BE, Hu Y, Perrimon N. Design and Generation of Drosophila Single Guide RNA Expression Constructs. Cold Spring Harb Protoc. 2016 Sep 1;2016(9):pdb.prot090779.

109. Housden BE, Perrimon N. Design and Generation of Donor Constructs for Genome Engineering in Drosophila. Cold Spring Harb Protoc. 2016;2016 (9) :pdb.prot090787.

110. Droujinine IA, Perrimon N. Interorgan Communication Pathways in Physiology: Focus on Drosophila. Annu Rev Genet. 2016 Oct 10.

111. Hu Y, Comjean A, Roesel C, Vinayagam A, Flockhart I, Zirin J, Perkins L, Perrimon N, Mohr SE. FlyRNAi.org-the database of the Drosophila RNAi screening center and transgenic RNAi project: 2017 update. Nucleic Acids Res. 2017 Jan 4;45(D1):D672-D678. PMCID: PMC5210654.

112. Housden BE, Muhar M, Gemberling M, Gersbach CA, Stainier DY, Seydoux G, Mohr SE, Zuber J, Perrimon N. Loss-of-function genetic tools for animal models: cross-species and cross-platform differences. Nat Rev Genet. 2017 Jan;18(1):24-40. PMCID: PMC5206767.

113. Housden BE, Nicholson HE, Perrimon N. Synthetic Lethality Screens Using RNAi in Combination with CRISPR-based Knockout in Drosophila Cells. Bio-Protocol. 2017 Feb 5;7(3). PMCID: PMC5432019.

114. Chen CL, Perrimon N. Proximity-dependent labeling methods for proteomic profiling in living cells. Wiley Interdiscip Rev Dev Biol. 2017 Jul;6(4). PMCID: PMC5553119.

115. Chatterjee N, Perrimon N. Thermogenesis by THADA. Dev Cell. 2017 Apr 10;41(1):1-2. PMCID: N.A.

116. Hu Y, Comjean A, Mohr SE, FlyBase Consortium T, Perrimon N. Gene2Function: An Integrated Online Resource for Gene Function Discovery. G3 (Bethesda). 2017 Aug 7;7(8):2855-2858. PMCID: PMC5555488.

117. Ewen-Campen B, Mohr SE, Hu Y, Perrimon N. Accessing the Phenotype Gap: Enabling Systematic Investigation of Paralog Functional Complexity with CRISPR. Dev Cell. 2017 Oct 9;43(1):6-9. PMCID: N.A.

Book Chapters

1. Mahowald AP, Konrad KD, Engstrom L, Perrimon N. "Genetic Approach to Early Development." Molecular Biology of Development. New York, NY: Alan R. Liss, 1984. 185-197.

2. Mahowald AP, Konrad KD, Engstrom L, Perrimon N. "Genetic Analysis of Oogenesis and the Role of Maternal Gene Expression in Early Development." Developmental Biology. Vol. 1. New York, NY: Springer, 1984. 577-617.

3. Perrimon N, Mahowald AP. “The maternal role of zygotic lethals during early embryogenesis in Drosophila.” Gametogenesis and the early embryo. Ed. J. G. Gall. New York, NY: Alan R. Liss, 1986. 221-237.

4. Perrimon N, Mahowald AP. “Maternal contributions to early development in Drosophila.” Primers in Developmental Biology. Ed. G. Malacinski. New York, NY: Macmillan. 1987. 305-328.

5. Klingensmith J, Perrimon N. “Segment polarity genes and intercellular communication in Drosophila.” Cell Activation, genetic approaches. Eds. J. Mond, A. Weiss, J. Cambier. New York, NY: Raven Press. 1991. 251-274.

6. Brand AH, Manoukian AS, Perrimon N. “Ectopic expression in Drosophila.” Methods in Cell Biology. Vol. 44. Eds. L.S.B. Goldstein, E.A. Fyrberg. Orlando, FL: Academic Press. 1994. 635-653.

7. Melnick M, Perrimon N. “DmRaf.” The protein kinase Factsbook, Protein-Serine Kinases. Eds. G. Hardie, S. Hanks. Orlando, FL. Academic Press. 1995. 331-332.


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8. Wilder EL, Perrimon N. “Genes involved in post-embryonic cell proliferation in Drosophila.” Metamorphosis: Post-embryonic Re-programming of Gene Expression in Amphibian and Insect Cells. Eds. L.I. Gilbert, B.G. Atkinson, J.R. Tata. Orlando, FL: Academic Press. 1995. 363-400.

9. Li W, Perrimon N. “Specificity of receptor tyrosine signaling pathways: Lessons from Drosophila.” Genetic Engineering: Principles and Methods. Vol. 19. New York, NY: Plenum Press. 1997. 167-182.

10. Engstrom L, Noll E, Perrimon N. Paradigms to study signal transduction pathways in Drosophila. Curr Top Dev Biol. 1997;35:229-61. PMCID: N.A.

11. Häcker U, Perrimon N. “Components of the Wnt signaling pathway”. Cytoskeletal-Membrane and Signal Transduction. Eds. P. Cowin, M. Klymkowsky. Austin, TX: Landes Bioscience Publishers. 1997. 61-72.

12. Goode S, Perrimon N. “Brainiac and Fringe are pioneer proteins that impart specificity to Notch signals during Drosophila development.” In: Cold Spring Harbor Symposia on Quantitative Biology. Vol. LXII. Cold Spring Harbor, NY: CSHL Press. 1998. 177-184.

13. Mogila V, Bellaiche Y, Perrimon N. “Expression of I-Sce.I in Drosophila to study Double Stand Breaks.” In: DNA Repair Protocols: Eukaryotic Systems. Methods in Molecular Biology. Towtowa, NJ: Humana Press. 1998. 439-445.

14. Perrimon N. “Role of HSPG in growth-factor signalling pathways in Drosophila.” In: Human Frontier Workshop VI: Cell Surface Proteoglycans in Signalling and Development. Vol. 6. Strasbourg, France: HFSP Press. 1999. 157-162.

15. Bach EA, Perrimon N. “The role of the JAK-STAT in hematopoeisis and immune responses in Drosophila.” The JAK-STAT Pathway in Hematopoeisis. Ed. A. Ward. Austin, TX: Landes Bioscience. 2001. 112-127.

16. Stronach BE, Perrimon N. “Developmental signaling: ‘JNK pathway in Drosophila morphogenesis.’” In: Handbook of Cell Signaling. Vol. 2. Eds. RA. Bradshaw, E. Dennis. San Diego, CA: Academic Press. 2003. 783-787.

17. Bach EA, Perrimon N. “Prime time for the Drosophila JAK/STAT Pathway.” In: Signal Transducers and Activators of Transcription (STATs): Activation and Biology. Eds. P.B. Seghal, D.E. Levy, T. Hirano. Netherlands: Kluwer Academic Publishers. 2003. 87-104.

18. Duffy JB, Perrimon N. “The GAL4/UAS system for tissue specific analysis of EGFR gene function in Drosophila melanogaster.” In: Key Experiments in Practical Developmental Biology. Vol. 21. Eds. M. Mari-Beffa, J. Knight. Cambridge, UK: Cambridge University Press. 2004. 269-281.

19. Nybakken K, Perrimon N. “Carbohydrate and Lipid Modifications of Developmental Signaling Molecules.” In: Gastrulation: From cells to embryos. Vol. 50. Ed. C. Stern. Cold Spring Harbor, NY: CSHL Press. 2004. 667-676.

20. Perrimon N, Hyman T. “RNA interference: Mechanisms and Applications.” In: Cahier Les Treilles. Paris, France. 2004.

21. Zhou X, Liu KY, Bradley P, Perrimon N, Wong ST. “Towards automated cellular image segmentation for RNAi genome-wide screening.” In: Med Image Comput Comput Assist Interv Int Conf. Vol. 8. Heidelberg, Germany: Springer-Verlag. 2005. 885-892.

22. Mathey-Prevot B, Perrimon N. “Drosophila Genome-wide RNAi screens: Are they delivering the promise?” In: Regulatory RNAs. Cold Spring Harbor Symposia on Quantitative Biology. Vol. 71. Cold Spring Harbor, NY: CSHL Press. 2006. 141-148.

23. Perrimon N, Ni JQ, Perkins L. In vivo RNAi: today and tomorrow. Cold Spring Harb Perspect Biol. 2010 Aug;2(8):a003640. PMCID: PMC2908776.

24. Perrimon N, Pitsouli C, Shilo BZ. Signaling mechanisms controlling cell fate and embryonic patterning. Cold Spring Harb Perspect Biol. 2012 Aug 1;4(8):a005975. PMCID: PMC3405863.

25. Kulkarni MM, Perrimon N. “Analyzing the structure, function and information flow in signaling networks using quantitative cellular signatures.” In: Handbook of Systems Biology. Eds. N. Walhout, M. Vidal, J. Dekker. Amsterdam, Netherlands: Elsevier. 2013. 89-113.

26. Sopko R, Perrimon N. Receptor tyrosine kinases in Drosophila development. Cold Spring Harb Perspect Biol. 2013 Jun 1;5(6). pii: a009050. PMCID: PMC3660834.

27. Housden BE, Lin S, Perrimon N. “Cas9-based genome editing in Drosophila.” In: Methods Enzymol. Vol. 546. Eds. J.A. Doudna, E.J. Sontheimer. Amsterdam, Netherlands: Elsevier. 2014. 415-439.


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28. Sopko R, Perrimon N. “Systematic methods to interrogate genetic perturbations and map phosphorylation-dependent signaling.” In: Encyclopedia of Cell Biology. Vol. 4. Eds. R. Bradshaw, P. Stahl. Amsterdam, Netherlands: Elsevier. 2015. 227-233.

29. Sun S, Mohr S, Vinayagam A, Hong P, Perrimon N. “Inferring Genetic Architecture from Systems Genetics Studies in Drosophila Cells”. In: Systems Genetics. Eds. F. Markowetz, M. Boutros. Cambridge, UK: Cambridge University Press. 2015. 139-155.

30. Doupe D, Perrimon N. “Toward a Systems Understanding of Signaling Pathway Function.” In: Current Topics in Developmental Biology. Vol. 117. Ed. P.M. Wassarman. Burlington, VT: Academic Press. 2016. 221-236.

31. Mohr SE, Perrimon N. “Functional Genomics Screens in Drosophila Cells.” In: Drosophila Cells in Culture. 2nd Ed. Elsevier Academic Press 2017. 165-187.

32. Housden BE, Ewen-Campen B, Mohr SE, Perrimon N. “CRISPR-Based Perturbation of Gene Function in Drosophila Cells.” In: Drosophila Cells in Culture. 2nd Ed. Elsevier Academic Press 2017. 193-204.

Correspondence / Science Perspectives

1. Bilder D, Birnbaum D, Borg JP, Bryant P, Huigbretse J, Jansen E, Kennedy MB, Labouesse M, Legouis R, Mechler B, Perrimon N, Petit M, Sinha P. Collective nomenclature for LAP proteins. Nat Cell Biol. 2000 Jul;2(7):E114. PMCID: N.A.

2. Bilder D, Birnbaum D, Borg J, Huibregtse J, Kennedy M, Labouesse M, Mechler B, Perrimon N. Response to "Problems with LAP nomenclature." Nature Cell Biology. 2001 April 01; 3:E90. PMCID: N.A.

3. Perrimon N, Häcker U. Wingless, hedgehog and heparan sulfate proteoglycans. Development. 2004 Jun;131(11):2509-11; Author Reply 2511-3. PMCID: N.A.

4. Perrimon N. Q & A - Norbert Perrimon. Current Biology. 2005;15 (13) :R481-R482. PMCID: N.A.

5. Perrimon N. Journal Club. Nature. 2008 April; 452(10):669. PMCID: N.A.

6. Perrimon N. Building on the Shoulders of Giants (Journal Club). Nat Rev Mol Cell Bio. 2009 Jul;10(444):144. PMCID: N.A.

7. Kaplow IM, Singh R, Friedman A, Bakal C, Perrimon N, Berger B. RNAiCut: automated detection of significant genes from functional genomic screens. Nat Methods. 2009 Jul;6(7):476-7. PMCID: N.A.

8. Perrimon N. Deciphering gene expression patterns (Paper Pick). Dev Cell. 2011 Oct 18;21 :e1. PMCID: N.A.

9. Friedman AA, Perrimon N, VanHook AM. Science Signaling Podcast. [Audio]. Science Signaling. 2011 October. Available from: http://stke.sciencemag.org/content/4/196/pc22. PMCID: N.A.

10. Perrimon N. Drosophila developmental biology methods. Methods. 2014 Jun 15;68(1):1. PMCID: N.A.

11. Akbari OS, Bellen HJ, Bier E, Bullock SL, Burt A, Church GM, Cook KR, Duchek P, Edwards OR, Esvelt KM, Gantz VM, Golic KG, Gratz SJ, Harrison MM, Hayes KR, James AA, Kaufman TC, Knoblich J, Malik HS, Matthews KA, O'Connor-Giles KM, Parks AL, Perrimon N, Port F, Russell S, Ueda R, Wildonger J. BIOSAFETY. Safeguarding gene drive experiments in the laboratory. Science. 2015 Aug 28;349(6251):927-9. PMCID: PMC4692367.

12. Perrimon N, Bonini NM, Dhillon P. Fruit flies on the front line: the translational impact of Drosophila. Dis Model Mech. 2016 Mar;9(3):229-31. PMCID: PMC4833334

13. Teleman AA, Perrimon N. Open questions: completing the parts list and finding the integrating signals. BMC Biol. 2017 Jun 8;15(1):47. PMCID: PMC5463461.

14. Anderson W, Apweiler R, Bateman A, Bauer GA, Berman H, Blake JA, Blomberg N, Burley SK, Cochrane G, Di Francesco V, Donohue T, Durinx C, Game A, Green E, Gojobori T, Goodhand P, Hamosh A, Hermjakob H, Kanehisa M, Kiley R, McEntyre J, McKibbin R, Miyano S, Pauly B, Perrimon N, Ragan MA, Richards G, Teo YY, Westerfield M, Westhof E, Lasko PF. Data management: A global coalition to sustain core data. Nature. 2017 Mar 8;543(7644):179. PMCID: In Process.

15. He L, Si G, Huang J, Samuel ADT, Perrimon N. Mechanical regulation of stem-cell differentiation by the stretch-activated Piezo channel. Nature. 2018 Feb 7. PMCID N.A.

PREVIOUS AND CURRENT TRAINEES

http://stke.sciencemag.org/content/4/196/pc22


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Former Ph.D. Students

Current Ph.D. Students

Former Postdoctoral Fellows

Name Dates Current Position

Musacchio, M. 1985-1992 Project Scientist, Gene Targeting Core, Irvine

Binari, R. 1986-1993 Lab Manager, Perrimon Lab, Harvard Medical School

Klingensmith, J. 1986-1993 Associate Professor, Duke University

Zhang, K. 1987-1992 Professor, University of California-San Diego

Melnick, M. 1988-1993 V.P., Business & Corporate Development, Cell Signaling

Yoffe, K. 1990-1994 MD, Merrimack Valley Pediatric

Bellaiche, Y. 1994-1998 Director of Research, Curie Institute

Gayko, U. 1994-1998 VP Regulatory Affairs, Pharmacyclics Inc.

Schober, M. 2000-2003 Assistant Professor, New York University

Friedman, A. 2002-2007 Director of Corporate Development, Raze Therapeutics

Cho, Julio 2007-2011 Manager, Bain & Co.

Schnall-Levin, M. 2007-2011 VP of Computational Biology and Applications, 10X Genomics

Gibson, W.T. 2007-2011 Postdoctoral Fellow, David Anderson Lab

Ammeux, N. 2011-2015 N/A (Deceased, Formerly Postdoctoral Fellow, Yves Jacob Lab)


Droujinine, I 2012- Doctoral Student-Perrimon Lab, Harvard Medical School

Xu, C. 2012- Doctoral Student-Perrimon Lab, Harvard Medical School


Smouse, D. 1987-1988 Associate Professor, Zoology, Arizona State University

Ambrosio, L. 1986-1991 Associate Professor, Zoology & Genetics, Iowa State University

Perkins, L. 1986-1992 Director, TRiP, Harvard Medical School

Finkelstein, R. 1987-1992 Director – Division of Extramural Research, NINDS

Brand, A. 1988-1992 Professor, Gurdon Institute, Cambridge

Rutledge, B. 1988-1992 Research Fellow, Dana Faber Cancer Institute

Siegfried, E. 1988-1993 Assistant Professor, Penn State University

Chou, T-B. 1990-1994 Associate Professor, Zoology, National Taiwan University

Lu, X. 1990-1994 Associate Professor, Wayne State University

Wilder, E. 1990-1995 Program Director – OSC, NIH

Hsu, R. 1992-1995 Assistant Professor, National Tsinghua University, Taiwan

Manoukian, A. 1993-1995 Senior Scientist, Ontario Cancer Institute

Lorenz, L. 1990-1996 Associate Professor, University of Massachusetts Medical School

Harrison, D. 1991-1996 Associate Professor, Biology, University of Kentucky

Duffy, J. 1992-1996 Associate Professor, Worcester Polytechnic Institute

Kadowaki, T. 1994-1996 Associate Professor at Xi'an Jiaotong-Liverpool University

Axelrod, J. 1993-1997 Associate Professor, Stanford University

Eberl, D. 1993-1998 Associate Professor, University of Iowa

Goode, S. 1994-1998 Doctoral Student, Pacifica Graduate Institute

Ghiglione, C. 1996-1998 Director, Master’s Steering Committee, Universite de Nice

Häcker, U. 1995-1999 Professor, Lund University

Spana, E. 1996-1999 Assistant Professor, Duke University

Lin, X. 1995-2000 Professor, Cincinnati Medical School

Li, W. 1995-2000 Professor, University of California-San Diego


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The, I. 1997-2000 Assistant Professor, University of Utrecht

Zeidler, M. 1996-2001 Reader, University of Sheffield

Bilder, D. 1997-2001 Professor, University of California-Berkeley

Baum, B. 1998-2001 Professor, University College-London

Pettersen. U-M. 1999-2001 Research Fellow, University of Glasgow

Selva, E. 1996-2002 Associate Professor, University of Delaware

Bach, E. 1997-2002 Associate Professor, New York University Medical Center

Stronach, B. 1998-2002 Associate Professor, University of Pittsburgh

Boutros, M. 1999-2003 Group Leader, German Cancer Research Center

Schoeck, F. 1999-2003 Associate Professor, McGill University

Agaisse, H. 1998-2004 Associate Professor, University of Virginia School of Medicine

Kiger, A. 2000-2004 Associate Professor, University of California-San Diego

Vincent, S. 2000-2004 Assistant Professor, Maitre de Conference, ENS de Lyon

Baeg, G-H. 1998-2005 Assistant Professor, National University of Singapore

Cherry, S. 2000-2005 Associate Professor, University of Pennsylvania School of Medicine

Tan, C. 2001-2005 Associate Professor, University of Missouri-Columbia

Bradley, P. 2002-2005 Staff Fellow, U.S. Food & Drug Administration

DasGupta, R. 2002-2005 Associate Professor, New York University Cancer Institute

Brückner, K. 2000-2006 Professor, University of California-San Francisco

Kockel, L. 2000-2006 Research Associate, Seung Kim Laboratory, Stanford University

Micchelli, C. 2000-2006 Associate Professor, Washington University School of Medicine

Nybakken, K. 2000-2006 Research Scientist, Harvard University

Gibson, M. 2002-2006 Associate Investigator, Stowers Institute for Medical Research

Philips, J. 2003-2006 Assistant Professor, New York University

Silver, S. 2004-2006 Sr. Investigator & Group Leader, Novartis Inst. for BioMedical Research

Brouzes, E. 2004-2006 Assistant Professor, Stony Brook University

Sepp, K. 2002-2007 Chief Executive Officer, Oxalys Pharmaceuticals Inc.

Zhang, S. 2001-2008 Assistant Professor, University of Texas-Houston

Bai, J. 2002-2009 Senior Research Biologist, Merck Research Laboratories

Bakal, C. 2004-2009 Team Leader, Institute of Cancer Research London

Zhou, R. 2003-2010 Assistant Professor, Burnham Institute

Rahal, R. 2008-2010 Associate Director, Blueprint Medicines

Ni, J. 2009-2010 Associate Professor, Tsinghua University Beijing

Markstein, M. 2004-2011 Assistant Professor, University of Massachusetts-Amherst

Kulkarni, M. 2004-2011 Senior Scientist-R&D Oncology, Astrazeneca

Pitsouli, C. 2005-2011 Assistant Professor, University of Cyprus

Kondo, S. 2007-2011 Assistant Professor, National Institute Genetics Japan

Li, Z. 2010-2011 Assistant Professor, Chinese Academy of Science-Beijing

Demontis, F. 2006-2012 Assistant Member, St. Jude Hospital, Memphis

Swindell, W. 2009-2012 Research Investigator, University of Michigan

Yeh, J. 2009-2013 Dir., Antibody & Phage Display Facility, Cold Spring Harbor Cancer Ctr.

Neumuller, R. 2010-2013 Research Lab Head, Boehringer

Tipping, M. 2011-2013 Assistant Professor, Providence College

Samsonova, A. 2006-2014 Core Leader, Oxford University

Karpowicz, P. 2008-2014 Assistant Professor, Windsor University

Owusu-Ansah, E. 2009-2014 Assistant Professor, Columbia Medical School

Bergwitz, C. 2011-2014 Assistant Professor, Yale University

Dequeant, M-L. 2008-2015 Scientist, CRISPR Therapeutics

Kwon, Y. 2008-2015 Assistant Professor, University of Washington

Sopko, R. 2009-2015 Senior Scientist, Biogen

Vinayagam, A. 2010-2015 Manager-Computational Biology, Regeneron Pharmaceuticals

Zirin, J. 2006-2016 Assistant Director-DRSC/TRiP-FGR, Harvard Medical School


29

Current Postdoctoral Fellows

Former Visiting Scientists

Rajan, A. 2009-2016 Assistant Member, Fred Hutchinson Cancer Research Center

Wirtz-Peitz, F. 2010-2016 Consultant, Boston Consulting Group, London

Ni, X. 2012-2016 Senior Bioinformatician, Celgene

Housden, B. 2011-2017 Assistant Professor, Life Sciences Institute, University of Exeter

Doupe, D. 2013-2017 Assistant Professor, Dept. of Biosciences, Durham University

Ro, J. 2016-2017 Associate, Innovation Bioscience | CEO, Flidea LLC

Name Dates

Kim, K. 2010–

Song, W. 2011–

He, L. 2012–

Chen, C-L. 2012–

Parkhitko, A. 2013–

Hung, R-J. 2013–

Viswanatha, R. 2014–

Jouandin, P. 2014–

Ewen-Campen, B. 2014–

Tang, H-W. 2014–

Ghosh, A. 2015–

Petsakou, A. 2015–

Bosch, J. 2015–

Chatterjee, N. 2015–

Saavedra, P. 2016–

Tattikota, S. 2016–

Lan, Q. 2017–

Rajakumar, R. 2017–

Liu, L. 2017–


Mathy-Prevot, B. 1996-1998 Professor, Duke University School of Medicine

Mogila, V. 1996-1999 Institute of Gene Biology, Russian Academy of Sciences

Noselli, S. 1998-2000 Research Director, CR1 CNRS, Nice

Hollenbeck, P. 2004 Professor and Vice Provost for Faculty Affairs, Purdue University

Griffin, R. 2004-2007 Lecturer, Kingston University, London

Chejanovsky, N. 2006-2007 Professor, Agricultural Research Organization

Su, J. 2007-2008 Associate Professor, China

Cheng, D. 2011-2012 Associate Professor, Southwest University, China

McCall, K. 2013-2014 Professor & Chair of Biology, Boston University

Wang, X. 2015 Associate Professor, China

Documents

Norbert Perrimon, Ph.D. · 2011– James Stillman Professor of Developmental Biology, Harvard Medical School 2015