dr. dario lijtmaer - data sharing/collaboration and publication using bold
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An example of how to setup and manage a project on the BOLD systemTRANSCRIPT
Data Sharing/Collaboration and Publication using BOLD
Darío LijtmaerMuseo Argentino de Ciencias Naturales “Bernardino Rivadavia”
Informatics Pre-Conference WorkshopNovember 28, 2011
Common challenges in (collaborative) barcoding projects
1- Collaborators have different areas of expertise and roles in the project.
Field work
Taxonomy and voucher preparation
Molecular laboratory
Data analysis
Common challenges in (collaborative) barcoding projects
1- Collaborators have different areas of expertise and roles in the project.
2- Collaborators are often thousands of miles apart and interacting is not as easy as when two researchers work in the same institution.
Localities of collection - ABBI
iBOL participating nations Distribution of CBOL institutions
Common challenges in (collaborative) barcoding projects
1- Collaborators have different areas of expertise and roles in the project.
2- Collaborators are often thousands of miles apart and interacting is not as easy as when two researchers work in the same institution.
The use of BOLD as a workbench to share data and interact can help overcoming these challenges.
MACN - Argentina CCDB - Canada
Objective: to barcode the birds of the southern cone of South America
Barcoding the Birds of southern South America
UMSA - Bolivia
Field work in Argentina
and Bolivia
Tissue samples and vouchers at MACN UMSA and other
Institutions
Barcodes obtained at CCDB
Students trained at
CCDB
Analysis performed together
Extraction and amplification
done at MACN
Barcoding the Birds of southern South America
Collaboration and data sharing using BOLD: project users
Collaboration and data sharing using BOLD: project users
Collaboration and data sharing using BOLD: project users
Collaboration and data sharing using BOLD: project users
Collaboration and data sharing using BOLD: project users
Collaboration and data sharing using BOLD: project users
Collaboration and data sharing using BOLD: project users
- Users need to have a BOLD account for me to be able to give them access to the project.
Collaboration and data sharing using BOLD: project users
- Users need to have a BOLD account for me to be able to give them access to the project.
- There are different degrees of access for the users.
Collaboration and data sharing using BOLD: project users
Collaboration and data sharing using BOLD
Collaboration and data sharing using BOLD
Collaboration and data sharing using BOLD
Collaboration and data sharing using BOLD
Collaboration and data sharing using BOLD
Collaboration and data sharing using BOLD
All unexpected results are checked for possible contamination or misidentifications using BOLD
Possible contamination
C. pyrrophia
P. torquata
S. similis
S. coerulescens
Possible misidentification
Publication using BOLD: sending barcode sequences to GenBank
Publication using BOLD: sending barcode sequences to GenBank
Publication using BOLD: sending barcode sequences to GenBank
Publication using BOLD: sending barcode sequences to GenBank
GenBank update channel: in BOLD v3.0 (beta) the curation of specimen and sequence records is coordinated with GenBank. Changes and updates made in BOLD are automatically sent to the GenBank staff so that the info is also modified in GenBank.
Publication using BOLD: bibliography submission
Publication using BOLD: bibliography submission
Publication using BOLD: bibliography submission
Making your project public
Making your project public
Making your project public
Data Sharing/Collaboration and Publication using BOLD
Thank you very much!
Darío LijtmaerMuseo Argentino de Ciencias Naturales “Bernardino Rivadavia”
Informatics Pre-Conference WorkshopNovember 28, 2011