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Series GSE67023 Query DataSets for GSE67023
Status Public on Mar 20, 2015
Title An experimentally supported model of the Bacillus subtilis global transcriptional regulatory network.
Organism Bacillus subtilis
Experiment type Expression profiling by array
Summary Organisms from all domains of life use gene regulation networks to control cell growth, identity, function, and responses to environmental challenges. Although accurate global regulatory models would provide critical evolutionary and functional insights, they remain incomplete, even for the best studied organisms. Efforts to build comprehensive networks are confounded by challenges including network scale, degree of connectivity, complexity of organism-environment interactions, and difficulty of estimating the activity of regulatory factors. Taking advantage of the large number of known regulatory interactions in Bacillus subtilis, we use new methods to integrate transcriptomics data with computational tools to simultaneously estimate transcription factor activities and learn a substantially expanded transcriptional regulatory network for this bacterium. To assess the accuracy of our model we tested 2030 predictions and confirmed 1485 regulatory interactions (36% of the full model), thus significantly increasing our understanding of various cell processes, such as spore formation.
 
Overall design 260 samples including biological replicates. See sample description for more detailed experiment design.
Web link http://www.ncbi.nlm.nih.gov/pubmed/26577401
 
Contributor(s) Eichenberger P
Citation(s) 26577401
Submission date Mar 18, 2015
Last update date Nov 30, 2015
Contact name Patrick Eichenberger
E-mail(s) pe19@nyu.edu, arb401@nyu.edu
Organization name New York University
Department Center for Genomics and Systems Biology
Lab Eichenberger
Street address 12 Waverly Place
City New York
State/province New York
ZIP/Postal code 10003
Country USA
 
Platforms (1)
GPL15179 Agilent-029629 b.subt-final-sense-3probes-july29 [Gene-level version]
Samples (268)
GSM1636117 Germ1_T40min
GSM1636118 Germ1_T70min
GSM1636119 Germ1_T90min
Relations
BioProject PRJNA278853

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE67023_RAW.tar 398.5 Mb (http)(custom) TAR (of TXT)
Raw data provided as supplementary file
Processed data included within Sample table

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