Literature DB >> 17308342

ClusterDraw web server: a tool to identify and visualize clusters of binding motifs for transcription factors.

Dmitri Papatsenko1.   

Abstract

ClusterDraw is a program aimed to identification of binding sites and binding-site clusters. Major difference of the ClusterDraw from existing tools is its ability to scan a wide range of parameter values and weigh statistical significance of all possible clusters, smaller than a selected size. The program produces graphs along with decorated FASTA files. ClusterDraw web server is available at the following URL: http://flydev.berkeley.edu/cgi-bin/cld/submit.cgi

Mesh：

Substances：

Year:  2007        PMID： 17308342     DOI： 10.1093/bioinformatics/btm047

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  19 in total

Review 1.  The evolution of dorsal-ventral patterning mechanisms in insects.

Authors:  Jeremy A Lynch; Siegfried Roth
Journal:  Genes Dev       Date:  2011-01-15       Impact factor: 11.361

2.  Multiple enhancers ensure precision of gap gene-expression patterns in the Drosophila embryo.

Authors:  Michael W Perry; Alistair N Boettiger; Michael Levine
Journal:  Proc Natl Acad Sci U S A       Date:  2011-08-08       Impact factor: 11.205

3.  Complex interplay of evolutionary forces in the ladybird homeobox genes of Drosophila melanogaster.

Authors:  Evgeniy S Balakirev; Maria Anisimova; Francisco J Ayala
Journal:  PLoS One       Date:  2011-07-22       Impact factor: 3.240

4.  Twine: display and analysis of cis-regulatory modules.

Authors:  Joseph C Pearson; Stephen T Crews
Journal:  Bioinformatics       Date:  2013-05-08       Impact factor: 6.937

5.  Co-activation of microRNAs by Zelda is essential for early Drosophila development.

Authors:  Shengbo Fu; Chung-Yi Nien; Hsiao-Lan Liang; Christine Rushlow
Journal:  Development       Date:  2014-04-24       Impact factor: 6.868

6.  Context-dependent transcriptional interpretation of mitogen activated protein kinase signaling in the Drosophila embryo.

Authors:  Yoosik Kim; Antonina Iagovitina; Keisuke Ishihara; Kate M Fitzgerald; Bart Deplancke; Dmitri Papatsenko; Stanislav Y Shvartsman
Journal:  Chaos       Date:  2013-06       Impact factor: 3.642

7.  Response to the BMP gradient requires highly combinatorial inputs from multiple patterning systems in the Drosophila embryo.

Authors:  Hsiao-Lan Liang; Mu Xu; Yi-Chun Chuang; Christine Rushlow
Journal:  Development       Date:  2012-04-18       Impact factor: 6.868

8.  Statistical detection of cooperative transcription factors with similarity adjustment.

Authors:  Utz J Pape; Holger Klein; Martin Vingron
Journal:  Bioinformatics       Date:  2009-03-13       Impact factor: 6.937

9.  Organization of developmental enhancers in the Drosophila embryo.

Authors:  Dmitri Papatsenko; Yury Goltsev; Michael Levine
Journal:  Nucleic Acids Res       Date:  2009-08-03       Impact factor: 16.971

10.  Finding evolutionarily conserved cis-regulatory modules with a universal set of motifs.

Authors:  Bartek Wilczynski; Norbert Dojer; Mateusz Patelak; Jerzy Tiuryn
Journal:  BMC Bioinformatics       Date:  2009-03-10       Impact factor: 3.169
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.