Boosting with stumps for predicting transcription start sites

Zhao, Xi., Xuan, Z. Y., Zhang, M. Q. (February 2007) Boosting with stumps for predicting transcription start sites. Genome Biol, 8 (2). R17. ISSN 1465-6914 (Electronic)

[thumbnail of Boosting_with_stumps_for_predicting_transcription_start_sites.pdf]
Boosting_with_stumps_for_predicting_transcription_start_sites.pdf - Published Version

Download (389kB)
DOI: 10.1186/gb-2007-8-2-r17


Promoter prediction is a difficult but important problem in gene finding, and it is critical for elucidating the regulation of gene expression. We introduce a new promoter prediction program, CoreBoost, which applies a boosting technique with stumps to select important small-scale as well as large-scale features. CoreBoost improves greatly on locating transcription start sites. We also demonstrate that by further utilizing some tissue-specific information, better accuracy can be achieved.

Item Type: Paper
Uncontrolled Keywords: Algorithms Computational Biology/ methods Databases, Genetic Genomics/ methods Promoter Regions (Genetics)/genetics Software Transcription Initiation Site RNA-POLYMERASE-II GENOME-WIDE ANALYSIS CORE PROMOTER DNA SEQUENCES ELEMENTS IDENTIFICATION RECOGNITION DATABASE VIEW
Subjects: bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > transcription
bioinformatics > genomics and proteomics > databases
bioinformatics > genomics and proteomics > annotation > gene expression profiling annotation
bioinformatics > quantitative biology
bioinformatics > genomics and proteomics > annotation > sequence annotation
bioinformatics > genomics and proteomics > computers > computer software
CSHL Authors:
Communities: CSHL labs > Zhang lab
Depositing User: CSHL Librarian
Date: 2 February 2007
Date Deposited: 29 Aug 2011 22:48
Last Modified: 11 Apr 2018 16:00
PMCID: PMC1852414
Related URLs:

Actions (login required)

Administrator's edit/view item Administrator's edit/view item
CSHL HomeAbout CSHLResearchEducationNews & FeaturesCampus & Public EventsCareersGiving