plntfdb.bio.uni-potsdam.de
Plant Transcription Factor database - Universitaet PotsdamPlnTFDB is a public database arising from efforts to identify and catalog all Plant genes involved in transcriptional control.
http://plntfdb.bio.uni-potsdam.de/
PlnTFDB is a public database arising from efforts to identify and catalog all Plant genes involved in transcriptional control.
http://plntfdb.bio.uni-potsdam.de/
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Plant Transcription Factor database - Universitaet Potsdam | plntfdb.bio.uni-potsdam.de Reviews
https://plntfdb.bio.uni-potsdam.de
PlnTFDB is a public database arising from efforts to identify and catalog all Plant genes involved in transcriptional control.
plntfdb.bio.uni-potsdam.de
Plant Transcription Factor database - Technical details - Universitaet Potsdam
http://plntfdb.bio.uni-potsdam.de/v3.0/tech.php
The Plant Transcription Factor Database (PlantTFDB) runs in a Linux Server. Data is stored in a relational database powered by MySQL. The web interface is written in PHP, and is served by the Apache httpd server. The standards for HTML and CSS, 4.01 and 2.1 respectively, were carefully followed to assure browser interoperability. All pages in this site are standard compliant, you can check with the links below.
Downloads - Plant Transcription Factor database - Universitaet Potsdam
http://plntfdb.bio.uni-potsdam.de/v3.0/downloads.php
From this form you can download different data sets for all the genes listed in the PlnTFDB. List of transcription factors.
Plant Transcription Factor database - Universitaet Potsdam
http://plntfdb.bio.uni-potsdam.de/v3.0/links.php
The National Center for Biotechnology Informacion, NCBI, creates public databases, conducts research in computational biology, develops software tools for analyzing genome data, and disseminates biomedical information - all for the better understanding of molecular processes affecting human health and disease. Sheen's laboratory is interested in the elucidation of molecular mechanisms underlying plant responses to growth and stress hormones, nutrients, environmental stresses, and pathogens. PLACE is a da...
PDB Structures - Plant Transcription Factor database - PDB - Universitaet Potsdam
http://plntfdb.bio.uni-potsdam.de/v3.0/PDB_structures.php
Select Species, Family. Chlorella sp. NC64A (CNC64A). Coccomyxa sp. C-169 (CVU). Micromonas pusilla CCMP1545 (MPU). Micromonas sp. RCC299 (MPU299). Oryza sativa subsp. indica (OSAI). Oryza sativa subsp. japonica (OSAJ). Eg 1YEL, 1UL4).
BLAST search - Plant Transcription Factor database - Universitaet Potsdam
http://plntfdb.bio.uni-potsdam.de/v3.0/blastform.php
Here you can use our local BLAST ( PUBMEDID:2231712. Query facility fo find matches of your protein of interest against proteins in PlantTFDB. This BLAST facility can only be used to query a protein database with a protein or DNA sequence, using the programs "blastp" or "blastx", respectively. Only the first 50 hits are shown. You must paste your sequence here (just your sequence, without name or any other information, NO. Gapped alignment on/off: On:.
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The PHANTOM database
http://phantomdb.ucsd.edu/geneportal
A resource provided by the laboratory of Julian I. Schroeder (UCSD), created by Felix Hauser and Wenxiao Chen. The Gene Search Portal allows you to search with one gene identifier such as a TAIR. Identifier for locus (AT2G45190) or gene model (AT2G45190.1) or alternatively a UniProt. Family definitions included in TAIR8. PP2C and PPP type phosphatases. PlnTFDB (Transcriptionfactors v3.0). Family definitions included in TAIR7. Biology Division of UCSD.
Documentation for PHANTOM database version 1.5
http://phantomdb.ucsd.edu/help
A resource provided by the laboratory of Julian I. Schroeder (UCSD), created by Felix Hauser and Wenxiao Chen. Documentation for PHANTOM database version 1.5. What can you do in PHANTOMDB? Searching and Analysing Gene Families. Search in Gene Family Definition. Analyse expression, alignments and protein domains. Sequence alignment and phylogenetic tree. Search on the amiRNA Search page. AmiRNA sequences, primers, PCR sequence and plasmid map. Definition of terms used. What can you do in PHANTOMDB? Entry ...
AthaMap
http://www.athamap.de/links.php
AIP - Arabidopsis Information Portal. PlnTFDB - Plant Transcription Factor Database. DATF - The database of Arabidopsis transcription factors. TAIR - The Arabidopsis Information Resource. MIPS - Arabidopsis thaliana database.
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http://www.molbiol-tools.ca/Transcriptional_factors.htm
See also: DNA MOTIFS. Transcription factor binding sites: several sites are available but I have not been particular impressed with the results when analyzing prokaryotic sequences. Institute for Transcriptional Informatics, Pittsburgh, U.S.A.) -. This tool is intended for promoter sequence analysis and works best with sequences of 500 nt. National Institute of Agrobiological Sciences, Japan). Plant cis-acting regulatory DNA elements. PlnTFDB. D Wilson et al. 2010. Nucl. Acids Res. 36:. Allows identifica...
The PHANTOM database
http://phantomdb.ucsd.edu/familyportal
A resource provided by the laboratory of Julian I. Schroeder (UCSD), created by Felix Hauser and Wenxiao Chen. The Family Search portal allows you to search the database without knowing family members. Depending on your choice you can either get additional information on expression levels, domain organisation, alignments and more (Metadata) or a detailed subcluster analysis.The required input are family identifiers such as C2C2-GATA. If you do not know the family identifier use the gene portal.
PlantTFDB - Plant Transcription Factor Databases @ CBI, PKU
http://planttfdb_v2.cbi.edu.cn/link.php
Plant Transcription Factor Database. JGI - DOE Joint Genome Institute. Phytozome - A tool for green plant comparative genomics. PlantGDB - Tools and resources for plant genomics. TAIR - The Arabidopsis Information Resource. MSU Rice Genome Annotation Project. RIS - Rice Information system. Maizesequence - Maize genome sequence. PlnTFDB - An integrative plant transcription factor database. PlanTAPDB - A Phylogeny-Based Resource of Plant Transcription-Associated Proteins. GEO - Gene Expression Omnibus.
BCES - Grupo de Biologia Computacional, Evolutiva e de Sistemas
http://bce.bioetanol.cnpem.br/tools.php
Grupo de Biologia Computacional, Evolutiva e de Sistemas. Laboratório Nacional de Ciência e Tecnologia do Bioetanol (CTBE). Centro Nacional de Pesquisa em Energia e Materiais (CNPEM). Rua Giuseppe Maximo Scolfaro No. 10000, Campinas/SP, Brasil. Leader: Dr. rer. nat. Diego M. Riaño-Pachón. Model-free exploration of ploidy levels using NGS data alone. General purpose software reposity:. Collection of scrips used by team members and collaborators. Plant Transcription Factor Database ( Brazil.
The PHANTOM database
http://phantomdb.ucsd.edu/portalmulti
A resource provided by the laboratory of Julian I. Schroeder (UCSD), created by Felix Hauser and Wenxiao Chen. The amiRNA Search portal allows you to search with multiple gene identifiers such as TAIR. Locus identifiers (AT2G45190) or alternatively UniProt. Identifiers (A8MQY6) in a set of amiRNAs targeting families for your amiRNA of interest (see table below). Reduce set of amiRNAs:. Minimal number of amiRNA targets:. Maximal number of amiRNA targets:. Name of Family Definition. Biology Division of UCSD.
AthaMap
http://www.athamap.de/citations.php
The following papers have cited AthaMap: PubMed. The following article is about AthaMap: Genetic Engineering and Biotechnology News. The following websites link to AthaMap or use AthaMap data:. To jump across Arabidopsis databases. Provides co-regulated gene relationships to estimate gene functions. Factors in Arabidopsis translation. A database for DNA-binding proteins and their binding sites. The UK network for Arabidopsis researchers. A database of plant cis-acting regulatory DNA elements.
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Plant Transcription Factor database - Universitaet Potsdam
30) is a public database arising from efforts to identify and catalogue all Plant. Genes involved in transcriptional control. The list of TFs here available was built from analyses on the following species, each of which has its own dedicated web database:. Currently contains 28193 protein models, 26184 distinct. To identify genes coding for transcription factors, previously constructed domain alignments (from the Pfam. Database version 23.0) or newly established alignments ( PlnTFDB. Or, you can write t...
Plant Transcription Factor database - Universitaet Potsdam
Genes involved in transcriptional control.". 30) is a public database arising from efforts to identify and catalogue all Plant. Genes involved in transcriptional control. The list of TFs here available was built from analyses on the following species, each of which has its own dedicated web database:. Currently contains 28193 protein models, 26184 distinct. To identify genes coding for transcription factors, previously constructed domain alignments (from the Pfam. Or, you can write the sequence identifie...
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