CEBS--Chemical Effects in Biological Systems: a public data repository integrating study design and toxicity data with microarray and proteomics data.
CEBS (Chemical Effects in Biological Systems) is an integrated public repository for toxicogenomics data, including the study design and timeline, clinical chemistry and histopathology findings and microarray and proteomics data. CEBS contains data derived from studies of chemicals and of genetic alterations, and is compatible with clinical and environmental studies. CEBS is designed to permit the user to query the data using the study conditions, the subject responses and then, having identified an appropriate set of subjects, to move to the microarray module of CEBS to carry out gene signature and pathway analysis. Scope of CEBS: CEBS currently holds 22 studies of rats, four studies of mice and one study of Caenorhabditis elegans. CEBS can also accommodate data from studies of human subjects. Toxicogenomics studies currently in CEBS comprise over 4000 microarray hybridizations, and 75 2D gel images annotated with protein identification performed by MALDI and MS/MS. CEBS contains raw microarray data collected in accordance with MIAME guidelines and provides tools for data selection, pre-processing and analysis resulting in annotated lists of genes of interest. Additionally, clinical chemistry and histopathology findings from over 1500 animals are included in CEBS. CEBS/BID: The BID (Biomedical Investigation Database) is another component of the CEBS system. BID is a relational database used to load and curate study data prior to export to CEBS, in addition to capturing and displaying novel data types such as PCR data, or additional fields of interest, including those defined by the HESI Toxicogenomics Committee (in preparation). BID has been shared with Health Canada and the US Environmental Protection Agency. CEBS is available at http://cebs.niehs.nih.gov. BID can be accessed via the user interface from https://dir-apps.niehs.nih.gov/arc/. Requests for a copy of BID and for depositing data into CEBS or BID are available at http://www.niehs.nih.gov/cebs-df/.
Waters
Michael
M
NIEHS, National Center for Toxicogenomics, PO Box 12233, Research Triangle Park, NC 27709, USA.
Stasiewicz
Stanley
S
Merrick
B Alex
BA
Tomer
Kenneth
K
Bushel
Pierre
P
Paules
Richard
R
Stegman
Nancy
N
Nehls
Gerald
G
Yost
Kenneth J
KJ
Johnson
C Harris
CH
Gustafson
Scott F
SF
Xirasagar
Sandhya
S
Xiao
Nianqing
N
Huang
Cheng-Cheng
CC
Boyer
Paul
P
Chan
Denny D
DD
Pan
Qinyan
Q
Gong
Hui
H
Taylor
John
J
Choi
Danielle
D
Rashid
Asif
A
Ahmed
Ayazaddin
A
Howle
Reese
R
Selkirk
James
J
Tennant
Raymond
R
Fostel
Jennifer
J
D000818:Animals; D030541:Databases, Genetic; D006801:Humans; D020407:Internet; D051379:Mice; D020411:Oligonucleotide Array Sequence Analysis; D040901:Proteomics; D051381:Rats; D018511:Systems Integration; D043922:Toxicogenetics; D014584:User-Computer Interface