genemerge.net
GeneMerge - Usage
http://www.genemerge.net/usage.html
One indication of a software's usefulness is the extent to which it is used by the scientific community and how often such use leads to publishable results. Below is information on this topic for GeneMerge. Incorporation into Other Software. GeneMerge analyses have been carried out over the web server. Copies of GeneMerge have been downloaded. Has been incorporated into the Bioconductor. Microarray analysis package genArise. The Soybean Knowledge Base (SoyKB). The genomics and proteomics tool FACT. Funct...
pazar.info
Links | PAZAR
http://www.pazar.info/cgi-bin/links.pl
Given a count matrix summarizing the binding sites for a TF, predict TFBS in a sequence of your choice. Given a set of regulatory sequences, you wish to find new patterns that might be a novel type of TFBS. You have recovered a new TFBS pattern (count matrix) and wish to see if the pattern resembles other known TFBS profiles. Once you find a pattern, it is natural to want to compare it against a database of patterns to see if it matches a characterized type of TFBS. Http:/ jaspar.genereg.net/. Http:/ mem...
doopsearch.abc.hu
DoOPSearch Web Server - Main Page
http://doopsearch.abc.hu/index.php
DoOPSearch is a web application to search for evolutionary conserved sequence patterns and analyse the orthologous promoter clusters of the DoOP. Database. You can search with your own patterns against the sequence and motif collections of DoOP. Using the pattern search tool MOFEXT developed for this task or the FUZZNUC program of the EMBOSS software suite. You can also examine the existing motifs in detail. The description of the webserver can be found in the following article.
bioinforma.weebly.com
Transcription factor Binding Sites - Practical Bioinformatics
http://bioinforma.weebly.com/transcription-factor-binding-sites.html
Transcription factor Binding Sites. Plant Promoter and Regulatory Element Resources:. Src: http:/ www.dna.affrc.go.jp/PLACE/). Plantpan ( http:/ plantpan.mbc.nctu.edu.tw/seq analysis.php. Curently have transcription factor binding site search options in following species: Arabidopsis, Barley ,Bean ,Maize ,Medicago, Pea, Petunia, Potato, Rape, Rice, Snapdragon, Soybean, Tobacco, Tomato, Wheat and others. Alongwith transcription facors, plantpan also finds Tandem repeats, CpNpG and miRNA ( Arabidopsis.
regulatorygenomics.upf.edu
Endre Sebestyén | Computational Genomics Group
http://regulatorygenomics.upf.edu/people/current-members/endre-sebestyen
RNA Biology, Alternative splicing and Disease. Skip to primary content. Skip to secondary content. I graduated in 2003 at the Eötvös Loránd University (ELTE), Budapest, Hungary and have an MSc in molecular biology. I have a PhD in Classical and molecular genetics, also from ELTE, focusing on the bioinformatic analysis of eukaryotic transcriptional factor binding sites and promoter regions ( DoOP database. Endre dot sebestyen at upf dot edu. Advance online publication doi:10.1093/nar/gku1392.
genomika.net
Genomikai Nemzeti Technológiai Platform
http://www.genomika.net/gntp/szolgaltatok.html
Genomikai kincs, biobanking. Tudásmenedzsment, oktatás, képzés. Genomika, mint interdiszciplináris technológia. Szabályozás, etikai-, jogi, szociális hatások. Research infrastructures (Core Facilities) of the Genomics Network provide services in three main areas:. Center for Clinical Genomics and Personalized Medicine (Debrecen). Semmelweiss University, Department of Genetics, Cell- and Immunobiology (Budapest). Biological Research Centre, Hungarian Academy of Sciences (Szeged).
zlab.bu.edu
-Zlab Gene Regulation Tools-
http://zlab.bu.edu/zlab/gene.shtml
This webpage collects links related to bioinformatics of gene regulation (mostly transcriptional regulation). At the top you can find resources developed locally by members of the Zlab, and below that we have organized external resources by category. Human, mouse and rat promoter extraction service. Simple matrix-based motif search. Generate transcriptional regulatory networks from microarray and promoter sequence data. An XML format for Sequence Motif Detection Programs. Newest method - our favorite!
