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1 Retrieve flat files - S.cerevisiae - Yeastract
http://www.yeastract.com/download.php
YEASTRACT database provides assistance in three major issues: prediction of gene transcriptional regulation, DNA motif and global expression analysis according ...
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2 YEASTRACT+: a portal for cross-species comparative ...
https://academic.oup.com/nar/article/48/D1/D642/5581735
The YEASTRACT+ information system (http://YEASTRACT-PLUS.org/) is a wide-scope tool for the analysis and ... Open in new tabDownload slide.
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3 YEASTRACT: an upgraded database for the analysis ... - NCBI
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753369/
The YEASTRACT (YEAst Search for Transcriptional Regulators And Consensus ... an excel document can be downloaded, with filling instructions.
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4 (PDF) YEASTRACT+: A portal for cross-species comparative ...
https://www.researchgate.net/publication/336286902_YEASTRACT_A_portal_for_cross-species_comparative_genomics_of_transcription_regulation_in_yeasts
Request PDF | YEASTRACT: An upgraded database for the analysis of transcription regulatory networks in Saccharomyces cerevisiae | The YEAst ...
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5 Additional insights into the organization of transcriptional ...
https://bmcresnotes.biomedcentral.com/articles/10.1186/s13104-022-05940-5
The supplementary data provided all the YEASTRACT transcriptional ... zenodo.org/record/5841177/files/3D_distances.parquet.gzip?download=1).
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6 S.cerevisiae - Yeastract
http://yeastract-plus.org/yeastract/scerevisiae/view.php?existing=locus&orfname=YOR138C
Download FASTA · View Seq, Sequence hidden. Promoter Sequence Download FASTA, >RUP1 YOR138C AAGCTCGTGATATTAGTATGCTTGAAATATGTAGCCAAAGCCTTACTAAACCGTTCCACA ...
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7 PRIME PubMed | YEASTRACT-DISCOVERER: new tools to improve ...
https://brain.unboundmedicine.com/medline/citation/18032429/YEASTRACT_DISCOVERER:_new_tools_to_improve_the_analysis_of_transcriptional_regulatory_associations_in_Saccharomyces_cerevisiae_
... YEASTRACT-DISCOVERER: new tools to improve the analysis of transcriptional regulatory associations in Saccharomyces cerevisiae. Download Prime PubMed ...
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8 YCRD: Yeast Combinatorial Regulation Database | PLOS ONE
https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0159213
... as the common target genes of TF1 and TF2, where a TF's experimentally validated target genes were downloaded from YEASTRACT database.
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9 YEASTRACT - FAIRsharing
https://fairsharing.org/FAIRsharing.mphj4z
YEASTRACT (Yeast Search for Transcriptional Regulators And Consensus Tracking) is a curated repository of more than 48333 regulatory ...
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10 YEASTRACT-DISCOVERER: new tools to improve the analysis of ...
https://cyberleninka.org/article/n/1182944
YEASTRACT (Yeast Search for Transcriptional Regulators And Consensus Tracking; www.yeastract. ... download the complete list of motifs found, ordered by //.
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11 Assessing regulatory features of the current transcriptional ...
https://www.nature.com/articles/s41598-020-74043-7
Venn diagram showing the content of YEASTRACT regulatory associations between transcription factors and target genes in S. cerevisiae according ...
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12 Teixeira MC, et al. (2014) - Saccharomyces Genome Database
https://www.yeastgenome.org/reference/S000155587
(2014) The YEASTRACT database: an upgraded information system for the analysis of gene and genomic transcription regulation in ... Download Citation (.nbib).
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13 K.lactis - N.C. Yeastract
http://ncyeastract.org/klactis/view.php?existing=locus&orfname=KLLA0_D03630g
Gene Sequence Download FASTA · View Seq, Sequence hidden. Promoter Sequence Download FASTA, >KLLA0_D03630g upstream sequence, from -1000 to -1, ...
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14 new tools to improve the analysis of transcriptional regulatory ...
https://europepmc.org/article/pmc/2238916
In this new release, YEASTRACT includes DISCOVERER, ... a link to a web page (Figure 1) where it is possible to download the complete list of motifs found, ...
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15 YEASTRACT: providing a programmatic access to curated ...
https://agris.fao.org/agris-search/search.do?recordID=US201301933591
YEASTRACT: providing a programmatic access to curated transcriptional regulatory associations in Saccharomyces cerevisiae through a web services interface [2011].
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16 Baiacu: A Tool for the Visual Analysis of the Saccharomyces ...
https://link.springer.com/chapter/10.1007/978-3-642-19914-1_7
The tool is currently using the regulatory network for Saccharomyces cerevisiae as provided by YEASTRACT [14], ... Download conference paper PDF ...
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17 YEASTRACT-DISCOVERER: new tools to improve the ... - SciCrunch
https://scicrunch.org/resources/18032429?rpKey=on
YEASTRACT-DISCOVERER: new tools to improve the analysis of transcriptional regulatory associations in Saccharomyces ... Pubmed ID: 18032429 RIS Download.
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18 Systematic identification of cis-regulatory variants that cause ...
https://elifesciences.org/articles/62669
Download elife-62669-table1-data1-v2.xlsx ... with either the BY or the RM allele to the Yeastract web server (http://www.yeastract.com).
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19 In/out-degree distribution of a transcriptional network — Ibidas ...
https://pythonhosted.org/Ibidas/tutorial_example1.html
url = "http://www.yeastract.com/download/RegulationTwoColumnTable_Documented_20111009.tsv.gz" >>> yeastract = Read(Fetch(url)).
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20 Gene Regulatory Networks
http://www.bibalex.org/supercourse/supercoursePPT/39011-40001/39361-39371.ppt
Using the Batch download link, collect all the gene sequences plus 1 KB ... Enter your list of co-expressed gene names in YeasTract web site and see if ...
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21 TFLink
https://tflink.net/protein/p35198/
If you wish to see all the data please click the download all button. Download all. Protein name. Uniprot ID ... Yeastract. Yeastract. Yeastract. Yeastract.
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22 YTRP »» Home
http://cosbi3.ee.ncku.edu.tw/YTRP/Home
... based on the newly updated data of YEASTRACT, downloaded on 2013/12. 2013/09 -- YTRP was released, based on the data of YEASTRACT download on 2013/03.
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23 LauraTerada Individual Journal Assignment Week 12
https://openwetware.org/wiki/LauraTerada_Individual_Journal_Assignment_Week_12
2 Using YEASTRACT to Infer which Transcription Factors Regulate a Cluster of Genes ... Download link, register, and download stem.zip file. Unzip file.
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24 Collection and Curation of Transcriptional Regulatory ...
https://www.frontiersin.org/articles/10.3389/fmicb.2018.00027/full
The Saccharomyces cerevisiae protein IDs were searched in the YEASTRACT database (Teixeira et al., 2014) to check if there are documented ...
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25 Seiðr: Efficient Calculation of Robust Ensemble Gene Networks
https://www.biorxiv.org/content/biorxiv/early/2021/03/19/250696/DC1/embed/media-1.pdf?download=true
in several databases (KEGG, BioGRID, YEASTRACT). For KEGG, we tested the following null hypothesis: Links between genes annotated to the ...
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26 Package 'OneHandClapping'
http://www2.uaem.mx/r-mirror/web/packages/OneHandClapping/OneHandClapping.pdf
All interactions between TF from Yeastract (release XX, see yeastract) in Version ... http://thebiogrid.org/downloads/archives/Release%2 ...
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27 Data sources and statistics of the latest release - FunCoup
https://funcoup5.scilifelab.se/statistics/
› statistics
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28 C.albicans - PathoYeastract
http://pathoyeastract.org/calbicans/view.php?existing=locus&orfname=C7_03520W_A
Download FASTA · View Seq, Sequence hidden. Promoter Sequence Download FASTA, >PNC1 C7_03520W_A GGGTTAGATTCCCGTTGTGATAGAAATGGGAAATTATCAGCTATGGTTATATCTAAAAAG ...
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29 arXiv:0901.1544v1 [q-bio.QM] 12 Jan 2009
https://arxiv.org/pdf/0901.1544
tor of respiratory genes, according to the YEASTRACT database (Teixeira et al., 2006). ... MIPS functional catagories were downloaded from.
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30 YTLR: Extracting yeast transcription factor-gene associations ...
https://www.sciencedirect.com/science/article/pii/S2001037022003750
YEASTRACT has manually curated the TFB and TFR literature evidence for TF-gene transcriptional associations in Saccharomyces cerevisiae. We downloaded the ...
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31 Genome-wide analysis of yeast expression data based on a ...
http://microbialcell.com/researcharticles/2019a-sima-microbial-cell/
(C) Assignment of activating TFs for the identified 72 cliques or for random cliques based on the YEASTRACT database.
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32 CAN1 Arginine Permease Deficiency Extends Yeast ...
https://www.cell.com/cell-reports/pdf/S2211-1247(17)30147-X.pdf
Our analysis using the YEASTRACT database. (Teixeira et al., 2014) revealed that out of 33 genes translationally upregulated in can1D cells, ...
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33 BIOINFORMATICS - DiVA Portal
http://www.diva-portal.org/smash/get/diva2:736623/FULLTEXT01.pdf
Functional association networks as priors for GRN inference at Akademiska Sjukhuset on August 7, 2014 http://bioinformatics.oxfordjournals.org/. Downloaded ...
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34 SABINE: Download - Universität Tübingen
http://www.ra.cs.uni-tuebingen.de/software/SABINE/downloads/index.htm
You can download the latest version of SABINE on this page. As we would like to know, who is using our program in ... YEASTRACT: http://www.yeastract.com/.
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35 Python for the Life Sciences: A Gentle Introduction to ...
https://books.google.com/books?id=y5CyDwAAQBAJ&pg=PA249&lpg=PA249&dq=yeastract+download&source=bl&ots=WCui1o1rPl&sig=ACfU3U0XZSO-jslRFj6I9UF8U0Xulwftww&hl=en&sa=X&ved=2ahUKEwjCmpHPpeH7AhVC0oUKHTONBzMQ6AF6BQjeARAD
Let's start by looking at just one: YEASTRACT,1 which stands for Yeast Search for ... A quick look at the YEASTRACT and you'll find the download page ...
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36 Bibtex for Journal Paper YEASTRACT-DISCOVERER
https://www.it.pt/BibTex/PaperJournals/6372
... doi={10.1093/nar/gkm976}, journal={Nucleic Acids Research}, title={YEASTRACT-DISCOVERER: new tools to improve the analysis ... Create and download bib file.
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37 db_matrix_files.tab
http://rsat.eead.csic.es/plants/motif_databases/db_matrix_files.tab
... Yeastract s_cerevisiae 20130918 http://www.yeastract.com/ Fungi Yeastract ; ; ... https://www.factorbook.org/motif/human/download Vertebrates FactorBook ...
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38 Evaluating active transcription factor predictions by scoring ...
https://services.bio.ifi.lmu.de/i-score
... calculate the inconsistency score for a given prediction of active TFs or to find the active TFs with the minimal inconsistency score can be downloaded ...
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39 Dynamic Bayesian Network Learning to Infer Sparse Models ...
https://ieeexplore.ieee.org/iel7/8857/9913693/09466470.pdf
download the data from the supplementary materials of ... get pairs of the selected 408 genes in the Yeastract database.
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40 Gene Regulatory Networks - Computational Molecular Biology
https://biochem218.stanford.edu/14Gene%20Regulatory%20Networks.pdf
Using the Batch download link, collect all the gene sequences plus 1 KB ... Enter your list of co-expressed gene names in YeasTract web site and see if.
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41 LoQAtE—Localization and Quantitation ATlas of the yeast ...
https://www.weizmann.ac.il/molgen/loqate/sites/molgen.loqate/files/nucl._acids_res.-2013-breker-nar-gkt933.pdf
To easily browse and download all aspects of ... vation we used YEASTRACT (22–24) to predict their potential targets.
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42 Inferring Causation in Yeast Gene Association Networks With ...
https://journals.sagepub.com/doi/pdf/10.1177/1176934320920310
several sets of genomic experiments.20 We downloaded the ... networks and TFs such as YEASTRACT,22 ... We downloaded to a local SQL database a total of.
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43 Computational Molecular Biology Biochem 218 - SlidePlayer
https://slideplayer.com/slide/5966285/
Download ppt "Index Slide 2-5: Statistical testing results 6-14: Clustering results 15-17: GRNsight visualization of YEASTRACT results 18-20: GRNmap output ...
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44 Functional association networks as priors for gene regulatory ...
https://docksci.com/functional-association-networks-as-priors-for-gene-regulatory-network-inference_5ad42d6ed64ab25f0e610ca0.html
Downloaded from http://bioinformatics.oxfordjournals.org/ at University of Bath, ... The gold standard network was derived from the Yeastract database ...
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45 How Can I Know The Source Of A Tf? - Biostars
https://www.biostars.org/p/43382/
How can I know the name of a gene product which is known as transcription factor?Is there any data of yeast I can download from the internet?
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46 NIH Public Access - CORE
https://core.ac.uk/download/pdf/33113410.pdf
Target genes of pulsing transcription factors were downloaded from Yeastract [12, 34, 35]. Both direct and indirect target genes were ...
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47 Genomic and transcriptome analyses reveal that MAPK - PubAg
https://pubag.nal.usda.gov/download/62289/pdf
(www.yeastract.com) and the Promoter Database of Saccharomyces cerevisiae (http:// · rulai.cshl.edu/SCPD). Functional enrichment analysis.
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48 Integrative Biology - RSC Publishing
https://pubs.rsc.org/en/content/getauthorversionpdf/c4ib00247d
Version 1 of the ChEA database was downloaded from http://amp.pharm.mssm.edu/chea in ... The TF-gene interactions were taken from the Yeastract.
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49 Relationships among Cell Size, Membrane Permeability, and ...
https://journals.asm.org/doi/abs/10.1128/aem.55.11.2995-2999.1989
The N.C.Yeastract and CommunityYeastract databases to study gene and genomic transcription regulation in non-conventional yeasts. Cláudia P Godinho et al., ...
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50 GRNmap and GRNsight: - F1000Research
https://f1000research.com/assets/download/1112534
from YEASTRACT. Dynamical systems modeling using. GRNmap. Visualization of modeling results using GRNsight. Interpretation, new questions,.
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51 NIH Public Access - Caltech AUTHORS
https://authors.library.caltech.edu/49514/36/nihms627456.pdf
Target genes of pulsing transcription factors were downloaded from Yeastract [12, 34, 35]. Both direct and indirect target genes were included in tabulating ...
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52 Identifying Endogenous Cellular Proteins Destabilizing the ...
https://www.mdpi.com/1999-4915/14/7/1366/pdf
2021)), and SWI1 gene regulators were collected from Yeastract ... The following supporting information can be downloaded at https://www.
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53 EPD The Eukaryotic Promoter Database
https://epd.epfl.ch/
Promoter elements · Select / Download · FTP site · Access MGA Database · MGA-Search · MGA Data Overview · MGA FTP site.
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54 The BioData.pt Microbiology and Biotechnology Community ...
https://biodata.pt/sites/default/files/2020-11/main.pdf
http://yeastract.com. • Repository of regulatory associations in S. cerevisiae. • Longstanding collaboration (15y). – iBB / Dep Bioeng @ IST.
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55 Big Data Analytics in Genomics - Page 76 - Google Books Result
https://books.google.com/books?id=5_xRDQAAQBAJ&pg=PA76&lpg=PA76&dq=yeastract+download&source=bl&ots=ug2TX-WYv5&sig=ACfU3U1kVTGgtt3agWulwIwYlfiwShRrNA&hl=en&sa=X&ved=2ahUKEwjCmpHPpeH7AhVC0oUKHTONBzMQ6AF6BQjaARAD
... http://www.yeastract.com/download.php) are used as transacting signals. ... The pathway information is downloaded from Saccharomyces Genome Database ...
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56 Microbial Stress: From Sensing to Intracellular and ...
https://books.google.com/books?id=J6T9DwAAQBAJ&pg=PA2018-IA50&lpg=PA2018-IA50&dq=yeastract+download&source=bl&ots=gF2gCCwLg0&sig=ACfU3U0TkhIi2M4gXyA8PdWxBhP5KXxvhw&hl=en&sa=X&ved=2ahUKEwjCmpHPpeH7AhVC0oUKHTONBzMQ6AF6BQjbARAD
The list of Aft targets from S. cerevisiae was obtained from Yeastract ... The raw ChIP-seq data can be downloaded from the GEO database with the accession ...
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57 Predicting Transcription Factor Complexes: A Novel Approach ...
https://books.google.com/books?id=vy66BQAAQBAJ&pg=PA60&lpg=PA60&dq=yeastract+download&source=bl&ots=eLgcvwtivK&sig=ACfU3U3zkKTKdyWm3F56aIipLmvwp_7b9g&hl=en&sa=X&ved=2ahUKEwjCmpHPpeH7AhVC0oUKHTONBzMQ6AF6BQjcARAD
The IDDI data of the latest release (May 2011) was downloaded from their website as a simple ... Swissregulon [164], Yeastract [165] and SCPD [166].
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