Annotation of environmental OMICS data: Application to the transcriptomics domain

Morrison N., Wood A.J., Hancock D., Shah S., Hakes L., Gray T., Tiwari B., Kille P., Cossins A., Hegarty M., Allen M.J., Wilson W.H., Olive P., Last K., Kramer C., Bailhache T., Reeves J., Pallett D., Warne J., Nashar K., Parkinson H., Sansone S.-A., Rocca-Serra P., Stevens R., Snape J., Brass A. and Field D. (2006) Annotation of environmental OMICS data: Application to the transcriptomics domain. OMICS A Journal of Integrative Biology, 10 2: 172-178. doi:10.1089/omi.2006.10.172


Author Morrison N.
Wood A.J.
Hancock D.
Shah S.
Hakes L.
Gray T.
Tiwari B.
Kille P.
Cossins A.
Hegarty M.
Allen M.J.
Wilson W.H.
Olive P.
Last K.
Kramer C.
Bailhache T.
Reeves J.
Pallett D.
Warne J.
Nashar K.
Parkinson H.
Sansone S.-A.
Rocca-Serra P.
Stevens R.
Snape J.
Brass A.
Field D.
Title Annotation of environmental OMICS data: Application to the transcriptomics domain
Journal name OMICS A Journal of Integrative Biology   Check publisher's open access policy
ISSN 1536-2310
Publication date 2006-01-01
Year available 2006
Sub-type Critical review of research, literature review, critical commentary
DOI 10.1089/omi.2006.10.172
Open Access Status Not yet assessed
Volume 10
Issue 2
Start page 172
End page 178
Total pages 7
Publisher MARY ANN LIEBERT INC
Language eng
Subject 1305 Biotechnology
1311 Genetics
Abstract Researchers working on environmentally relevant organisms, populations, and communities are increasingly turning to the application of OMICS technologies to answer fundamental questions about the natural world, how it changes over time, and how it is influenced by anthropogenic factors. In doing so, the need to capture meta-data that accurately describes the biological "source" material used in such experiments is growing in importance. Here, we provide an overview of the formation of the "Env" community of environmental OMICS researchers and its efforts at considering the meta-data capture needs of those working in environmental OMICS. Specifically, we discuss the development to date of the Env specification, an informal specification including descriptors related to geographic location, environment, organism relationship, and phenotype. We then describe its application to the description of environmental transcriptomic experiments and how we have used it to extend the Minimum Information About a Microarray Experiment (MIAME) data standard to create a domain-specific extension that we have termed MIAME/Env. Finally, we make an open call to the community for participation in the Env Community and its future activities.
Keyword Biotechnology & Applied Microbiology
Genetics & Heredity
Biotechnology & Applied Microbiology
Genetics & Heredity
BIOTECHNOLOGY & APPLIED MICROBIOLOGY
GENETICS & HEREDITY
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Unknown

Document type: Journal Article
Sub-type: Critical review of research, literature review, critical commentary
Collection: ResearcherID Downloads - Archived
 
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