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Conference Paper: ChIP-array: gene regulation network construction from ChIP-seq/chip and mRNA expression data

TitleChIP-array: gene regulation network construction from ChIP-seq/chip and mRNA expression data
Authors
Issue Date2011
PublisherThe University of Hong Kong.
Citation
The 2011 Hong Kong Inter-University Biochemistry Postgraduate Symposium, Hong Kong, China, 11 June 2011. How to Cite?
AbstractChromatin immunoprecipitation (ChIP) coupled with high-throughput techniques (ChIP-X), such as next generation sequencing (ChIP-Seq) and microarray (ChIP–chip), has been successfully used to map active transcription factor binding sites (TFBS) of a transcription factor (TF). The targeted genes can be activated or suppressed by the TF, or are unresponsive to the TF. Microarray technology has been used to measure the actual expression changes of thousands of genes under the perturbation of a TF, but is unable to determine if the affected genes are direct or indirect targets of the TF. Furthermore, both ChIP-X and microarray methods produce a large number of false positives. Combining microarray expression profiling and ChIP-X data allows more effective TFBS analysis for studying the function of a TF. However, current web servers only provide tools to analyze either ChIP-X or expression data, but not both. Here, we present ChIP-Array, a web server that integrates ChIP-X and expression data from human, mouse, yeast, fruit fly and Arabidopsis. This server will assist biologists to detect direct and indirect target genes regulated by a TF of interest and to aid in the functional characterization of the TF. ChIP-Array is available at http://wanglab.hku.hk/ChIP-Array, with free access to academic users.
DescriptionPoster Presentation: P-H043
Persistent Identifierhttp://hdl.handle.net/10722/140073

 

DC FieldValueLanguage
dc.contributor.authorQin, Jen_US
dc.contributor.authorLi, MJen_US
dc.contributor.authorWang, Pen_US
dc.contributor.authorZhang, MQen_US
dc.contributor.authorWang, JJen_US
dc.date.accessioned2011-09-23T06:06:19Z-
dc.date.available2011-09-23T06:06:19Z-
dc.date.issued2011en_US
dc.identifier.citationThe 2011 Hong Kong Inter-University Biochemistry Postgraduate Symposium, Hong Kong, China, 11 June 2011.en_US
dc.identifier.urihttp://hdl.handle.net/10722/140073-
dc.descriptionPoster Presentation: P-H043-
dc.description.abstractChromatin immunoprecipitation (ChIP) coupled with high-throughput techniques (ChIP-X), such as next generation sequencing (ChIP-Seq) and microarray (ChIP–chip), has been successfully used to map active transcription factor binding sites (TFBS) of a transcription factor (TF). The targeted genes can be activated or suppressed by the TF, or are unresponsive to the TF. Microarray technology has been used to measure the actual expression changes of thousands of genes under the perturbation of a TF, but is unable to determine if the affected genes are direct or indirect targets of the TF. Furthermore, both ChIP-X and microarray methods produce a large number of false positives. Combining microarray expression profiling and ChIP-X data allows more effective TFBS analysis for studying the function of a TF. However, current web servers only provide tools to analyze either ChIP-X or expression data, but not both. Here, we present ChIP-Array, a web server that integrates ChIP-X and expression data from human, mouse, yeast, fruit fly and Arabidopsis. This server will assist biologists to detect direct and indirect target genes regulated by a TF of interest and to aid in the functional characterization of the TF. ChIP-Array is available at http://wanglab.hku.hk/ChIP-Array, with free access to academic users.-
dc.languageengen_US
dc.publisherThe University of Hong Kong.-
dc.relation.ispartofHong Kong Inter-University Biochemistry Postgraduate Symposiumen_US
dc.relation.ispartofHong Kong Inter-University Biochemistry Postgraduate Symposium-
dc.titleChIP-array: gene regulation network construction from ChIP-seq/chip and mRNA expression dataen_US
dc.typeConference_Paperen_US
dc.identifier.emailQin, J: jingqin@hku.hk, qin0jing0@hotmail.comen_US
dc.identifier.emailLi, MJ: mulin0424.li@gmail.comen_US
dc.identifier.emailWang, P: pwwang@hku.hk, pwwang@pwwang.com-
dc.identifier.emailZhang, MQ: michael.zhang@utdallas.edu-
dc.identifier.emailWang, JJ: junwen@hku.hk-
dc.identifier.authorityWang, JJ=rp00280en_US
dc.identifier.hkuros192358en_US
dc.publisher.placeHong Kong, China-

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