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Research Data Management LabTrove: A Researcher Centric Electronic Laboratory Notebook www.labtrove.org 25 Feb 2014 IDCC 2014

International Digital Curation Conference Demo Talk LabTrove Digital Research Notebooks

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Page 1: International Digital Curation Conference Demo Talk LabTrove Digital Research Notebooks

Research  Data  Management  

LabTrove:  A  Researcher  Centric  Electronic  Laboratory  Notebook  

 www.labtrove.org    

25  Feb  2014   IDCC  2014  

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25  Feb  2014   IDCC  2014  

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Intelligent  Open  Access  to  Data      25  Feb  2014   IDCC  2014  

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Science  is  increasingly  

interdisciplinary  

25  Feb  2014   IDCC  2014  

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StructureGate  

The  academics  media  profile!  

Methods  are  as  important  as  the  data    

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Faraday’s  laboratory  notebooks  are  also  remarkable  in  the  amount  of  detail  that  they  give  about  the  design  and  setting  up  of  experiments,  interspersed  with  comments  about  their  outcome  and  thoughts  of  a  more  philosophical  kind.  All  are  couched  in  plain  language,  with  many  vivid  phrases  of  delightful  spontaneity….    Peter  Day,  ‘The  Philosopher’s  Tree:  A  Selection  of  Michael  Faraday’s  Writings’  

25  Feb  2014   IDCC  2014  

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Responsible  Researchers  •  Educa&on  of  researchers  is  cri&cal  – They  need  to  understand  that  they  are  the  most  important  part  of  the  chain  that  creates  reliable  value  in  the  research  record  

– They  are  the  best  place  people  to  record  an  accurate  account  

– They  need  to  be  able  to  do  this  easily  and  see  the  value  to  themselves  in  doing  so  

– LabTrove  makes  this  possible  –  it  does  not  impose  “the  best”  soluOon  but  allows  research  pracOce  to  evolve  

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The  integrity  of  science  as  a  discipline  rests  on  the  ability  of  scien;sts  to  reproduce  the  claims  of  others.        While  none  of  the  organic  chemistry  journals  go  to  the  same  lengths  as  Organic  Syntheses,  where  each  procedure  must  be  reproduced  as  described  in  an  independent  laboratory  before  publica;on,  ……..      sufficient  detail  so  that  the  procedures  can  be  reproduced  and  provide  sufficient  data  to  establish  the  structures  …….      This  informa;on  is  necessary  for  the  review  process  ……  to  base  their  experiments  on  published  work.  

Methods  are  as  important  as  the  data    

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Infrastructures  -­‐  Architecture  

CollaboraOon      

Sharing      

Reuse  

CuraOon  

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 Electronic  Laboratory  Notebooks  

 

ELNs  

Comparison  with  tradiOonal  paper  

notebooks  

 CommunicaOon  CollaboraOon  

Sharing  Linking  CuraOng  

 

•  Higher  Quality  Record  •  Natural  linking  to  data  

and  external  resources  •  Easier  CollaboraOon  •  Improved  planning  •  Improved  discussions  •  Efficiency  gain  in  

producOon  of  presentaOons/reports  

•  Change  the  nature  of  Professor/Student  interacOons    

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1980                                                            1990                                                            2000                                                            2010  

CollaboraOon  

SemanOcs  

User  focus  

Web  2.0  

RS/1  

PNNL  

Smart  Tea  

LabTrove  

Trust  in  ELNs  for    IP  compliance  

Developments  in  ELN  implementaOon    and  characterisOcs  

Commercial  offerings  

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The  LabTrove  story                

h\p://www.labtrove.org  

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How  do  we  communicate?  

•  Surprisingly  difficult  to  explain  what  a  process  involves  

•  Much  of  the  detail  is  assumed  to  be  understood  and  not  explicitly  discussed  

•  This  is  where  the  mis-­‐understandings  usually  arise.  

If  you  can't  describe  what  you  are  doing  as  a  process,  you  don't  know  what  you're  doing.    W.  Edwards  Deming    

Growing  need  for  the  global  (virtual)  equivalent  of  the    “Tea  Room”  

25  Feb  2014   IDCC  2014  

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LabTrove:  Easy  Communica;on  

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IDCC  2014  

AutoTrove  from  Matlab    

Computa;onal  processes  also  blog  25  Feb  2014  

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BlogMyData  Project  -­‐  Godiva  

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25  Feb  2014   IDCC  2014  

Diversity  and  Disability  

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LabTrove  Open  Notebooks  Mat  Todd’s  PZQ  Project  

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25  Feb  2014   IDCC  2014  

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If  you  have    a  plan  then  make  use  of  it!    Just  like  the  UK  COSHH  safety  plans  are  ideal  basis  for  driving  an  Electronic  Laboratory  Notebook    With  a  liIle  extra  work  a  plan  becomes  a  useful  way  to  provide  context  for  the  digital  record  25  Feb  2014   IDCC  2014  

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DisseminaOon  

•  Methods  and  emphasis  varies  with  discipline  –  Journal  vs  Conference  – Pure  vs  Applied  – Research  vs  ApplicaOon  

•  Authorship  &  Acknowledgements  – Who  goes  on  the  paper?  – Who  is  menOoned  in  the  press  release?  – Do  you  acknowledge  the  technician?  

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PublicaOon  •  On  publicaOon  make  the  LabTrove  pages  open  and  link  from  the  publicaOon  (direct  or  via  datacite  doi)    

•  Select  and  export  LabTrove  entries  as  staOc  HTML  (or  XML)  to  archive  as  Journal  supplementary  data,  which  maintains  the  links  between  LabTrove  records  

•  Provide  on  going  research  record  as  an  acOve  LabTrove  site  or  HTML  archive  web  site  to  align  with  RCUK  data  policies  

•  Achieve  Intelligent  Access  (Royal  Society)  as  the  data  files  are  linked  to  by  LabTrove  posts  which  explain  how  and  why  they  exist  and  what  they  mean  

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ValidaOon  

•  Increasing  the  value  of  data    •  How  to  bring  all  the  necessary  informaOon  together  to  enable  appropriate  validaOon  

•  Increasingly  difficult  &  expensive  to  achieve  •  Need  provenance  and  context  •  EssenOal  step  otherwise  just  a  collecOon  of  items    

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3D  Printers  

Change  in  the  whole  way  we  design  and  build  

Shared  Space?  25  Feb  2014   IDCC  2014  

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Archiving  of  data  

•  Experiments  are  oien  repeated  

– Data  stored  locally  on  a  computer  and  can’t  be  found  

– HandwriOng  can’t  be  read  –  Laboratory  notebooks  lost  or  damaged  

–  Correct  data  not  recorded  first  Ome  round  

h\p://www.ecs.soton.ac.uk/regenesis/pictures  

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Open  Source  -­‐  Hosted  Service  •  LabTrove  is  Open  Source  free  to  download  •  Clearly  sekng  up  yourself  incurs  setup  and  maintenance,  backup  and  support  costs!!  

•  So  ideal  if  LabTrove  Service  is  provided  as  a  hosted  service  which  offers  support  24/7  help  

•  Liberata  is  a  Janet  Broker  approved  provider  (meets  RCUK  requirements)    

•  We  are  working  with  Liberata  to  provide  the  UK  HE  LabTrove  Service  

25  Feb  2014   IDCC  2014