Reference Report

Reference
Citation	FlyBase Genome Annotators, (2011). Analysis and update of genes grouped into 34 co-expression clusters by the modENCODE Consortium. (Export to RIS)
FlyBase ID	FBrf0214035
Publication Type	FlyBase analysis
PubMed ID
PubMed Abstract
DOI
Related Publication(s)
Research paper	Identification of functional elements and regulatory circuits by Drosophila modENCODE. modENCODE Consortium et al., 2010, Science 330(6012): 1787--1797 [FBrf0212741]
Supplementary material	DataS14: Gene co-expression clusters. [FBrf0213979]
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2013_03
FB2013_02
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Associated Information
Comments	The modENCODE Consortium clustered 10,733 genes into 34 groups based on the similarity of their expression profiles throughout development (FBrf0213979). This clustering analysis was based upon FlyBase gene annotations from October 2009 (release 5.22, FB2009_09). As of June 2012, 238 of the 10,733 FlyBase gene identifers provided by the authors had become obsolete and were replaced by newer gene identifiers; FlyBase identifier replacement indicates significant gene model changes that could potentially confound the RNA-Seq expression profile upon which the clustering analysis was based. The nature of these gene model changes was reviewed to determine whether or not it made sense to apply clustering assignments based on old gene models to the updated gene models. For 93 genes, clustering assignments were not appended to updated gene models because either the FlyBase 5.22 gene model was subsequently split into two independent genes, or because two FlyBase 5.22 gene models assigned to different clusters were later merged into a single gene. For 145 genes, cluster assignments were propagated to updated (merged) gene models because either the merged genes had the same cluster assignment or the merge involved an annotated gene and a previously unannotated gene (i.e., a gene with no gene model and inferred from genetic data only).
Associated Files	File date: 2011.6.24 ; File size: 780288 ; File format: xls ; File name: FlyBase_Analysis_modENCODE_34_clusters_genes_110624.xls
Other Information
Secondary IDs
Language of Publication	English
Additional Languages of Abstract
Also Published As
Parent Publication
Publication Type
Abbreviation
Title
ISBN/ISSN
Data from Reference
Libraries/Collections (1)
	mE2_34_mRNA_expression_clusters