Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project.
Science
; 330(6012): 1775-87, 2010 Dec 24.
Article
in En
| MEDLINE
| ID: mdl-21177976
ABSTRACT
We systematically generated large-scale data sets to improve genome annotation for the nematode Caenorhabditis elegans, a key model organism. These data sets include transcriptome profiling across a developmental time course, genome-wide identification of transcription factor-binding sites, and maps of chromatin organization. From this, we created more complete and accurate gene models, including alternative splice forms and candidate noncoding RNAs. We constructed hierarchical networks of transcription factor-binding and microRNA interactions and discovered chromosomal locations bound by an unusually large number of transcription factors. Different patterns of chromatin composition and histone modification were revealed between chromosome arms and centers, with similarly prominent differences between autosomes and the X chromosome. Integrating data types, we built statistical models relating chromatin, transcription factor binding, and gene expression. Overall, our analyses ascribed putative functions to most of the conserved genome.
Full text:
1
Database:
MEDLINE
Main subject:
Gene Expression Regulation
/
Chromosomes
/
Caenorhabditis elegans
/
Gene Expression Profiling
/
Genome, Helminth
/
Molecular Sequence Annotation
Type of study:
Prognostic_studies
/
Risk_factors_studies
Limits:
Animals
Language:
En
Journal:
Science
Year:
2010
Type:
Article
Affiliation country:
United States