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Protocols

YeTFaSCo specifications

Information


Unique identifier OMICS_01861
Name YeTFaSCo
Alternative name Yeast Transcription Factor Specificity Compendium
Restrictions to use None
Maintained Yes

Taxon


  • Plants and Fungi
    • Saccharomyces cerevisiae

Publication for Yeast Transcription Factor Specificity Compendium

YeTFaSCo citations

 (5)
library_books

Updated regulation curation model at the Saccharomyces Genome Database

2018
PMCID: 5829562
PMID: 29688362
DOI: 10.1093/database/bay007

[…] omain, a domain description, a source of the classification and corresponding accession ID, and the number of S. cerevisiae genes that share the specified domain. Binding sites motifs as predicted by YeTFaSCo (http://yetfasco.ccbr.utoronto.ca; ) are also presented as sequence logos for DNA-binding transcription factors. These logos graphically represent the sequence conservation of each nucleotide […]

library_books

YEASTRACT: an upgraded database for the analysis of transcription regulatory networks in Saccharomyces cerevisiae

2017
Nucleic Acids Res
PMCID: 5753369
PMID: 29036684
DOI: 10.1093/nar/gkx842

[…] data enclosed in it and of the tools that have been developed to increase the ability to fully exploit the increasingly available data (–).Databases such as MYBS (), TRANSFAC (), RSAT (), YPA () and YeTFaSCo () focus most of their analysis and predictive power on the understanding of promoter regions, considering information that includes the occurrence of TF binding sites, but also the accessibi […]

call_split

Role of Ectopic Gene Conversion in the Evolution of a Candida krusei Pleiotropic Drug Resistance Transporter Family

2017
Genetics
PMCID: 5378117
PMID: 28159755
DOI: 10.1534/genetics.116.194811
call_split See protocol

[…] Phylemon 2.0 (), a publicly available web-tool, was used for sequence alignments, tree reconstruction, and the estimation of synonymous and nonsynonymous distances. YeTFaSCo (), another web-tool, was used to search for potential yeast TFBSs upstream of ABC1, ABC11, and ABC12. Sequence alignments were performed with ClustalW v2.0.10 () and viewed, and, if necessar […]

library_books

Multi breed and multi trait co association analysis of meat tenderness and other meat quality traits in three French beef cattle breeds

2016
PMCID: 4842279
PMID: 27107817
DOI: 10.1186/s12711-016-0216-y

[…] NES = 3.339; Targets = 43), which encodes a beta subunit of a heterodimeric PEBP2/CBF TF family that regulates genes involved in osteogenesis []; the serum response factor (SRF) (enriched motif ID = yetfasco-145; NES = 3.295; Targets = 23), the adenosine deaminase, RNA-specific, B1 (ADARB1) (enriched motif ID = hdpi-ADARB1; NES = 3.231; Targets = 63) and the mex-3 RNA binding family member C (MEX […]

library_books

One Hand Clapping: detection of condition specific transcription factor interactions from genome wide gene activity data

2012
Nucleic Acids Res
PMCID: 3467085
PMID: 22844089
DOI: 10.1093/nar/gks695

[…] We realized both Cin5p and Yap6p have very similar binding motifs (A) according to the YeTFaSCo database (), choosing the motifs with high expert confidence. They are derived from ChIP-chip data by Harbison et al. () and MacIsaac et al. () for CIN5 and YAP6, respectively. Figure 4.We se […]

Citations

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YeTFaSCo institution(s)
Department of Molecular Genetics, Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Canada

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