pathwaycommons.org

Pathway Commons: A Resource for Biological Pathway Analysis

What's inside version 9. Access and discover data integrated from public pathway and interactions databases. Pathway Commons, a web resource for biological pathway data. Cerami et al. NAR (2011). Search the entire collection of pathways. Get details about genes and their interactions. A pathway analysis online textbook: Workflows provide step-by-step instruction to pathway analysis; primers for deep-dives into concepts; case studies illustrate real-world use of methods and resources. The BioPAX Validator...

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CONTACTS AT PATHWAYCOMMONS.ORG

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Pathway Commons: A Resource for Biological Pathway Analysis | pathwaycommons.org Reviews

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What's inside version 9. Access and discover data integrated from public pathway and interactions databases. Pathway Commons, a web resource for biological pathway data. Cerami et al. NAR (2011). Search the entire collection of pathways. Get details about genes and their interactions. A pathway analysis online textbook: Workflows provide step-by-step instruction to pathway analysis; primers for deep-dives into concepts; case studies illustrate real-world use of methods and resources. The BioPAX Validator...

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Pathway Commons: A Resource for Biological Pathway Analysis | pathwaycommons.org Reviews

https://pathwaycommons.org

What's inside version 9. Access and discover data integrated from public pathway and interactions databases. Pathway Commons, a web resource for biological pathway data. Cerami et al. NAR (2011). Search the entire collection of pathways. Get details about genes and their interactions. A pathway analysis online textbook: Workflows provide step-by-step instruction to pathway analysis; primers for deep-dives into concepts; case studies illustrate real-world use of methods and resources. The BioPAX Validator...

INTERNAL PAGES

pathwaycommons.org

1

Pathway Commons::Submit Feedback

http://www.pathwaycommons.org/pc/get_feedback.do

Current filters: All Organisms, All Data Sources. Set filters. We welcome your comments. Send us your feedback:. Pathway Commons is built and maintained by Memorial Sloan-Kettering Cancer Center. And the University of Toronto.

2

cPath2::Info (Pathway Commons)

http://www.pathwaycommons.org/pc2

Pathway Commons Web Service v8. To query the integrated biological pathway database, application developers can use the following commands:. Please check the availability terms of contributing databases. There are a number of "undocumented" URLs (subject to change without notice) providing metadata, files, scripts and images for creating and maintaining this website. Nevertheless, advanced users may find the following examples useful:. Fore more information, please contact us. About URIs and IDs. URLs (f...

3

PCViz: Pathway Commmons Network Visualizer

http://www.pathwaycommons.org/pcviz

4

cPath2::Downloads (Pathway Commons)

http://www.pathwaycommons.org/pc2/downloads

Pathway Commons Web Service v8. Current and old version pathway data archives in BioPAX, SIF and GMT formats. And more, can be downloaded from here. What you find there. Data archives there have names like. PathwayCommons.8. source . FORMAT . ext .gz. Where source is either identifier (part of the provenance URI) or 'All' (all the data merged), or 'Detailed' (pathway data only; PSI-MI data were removed), or 'Warehouse' (only entity reference objects, xrefs, vocabularies; no pathways/interactions).

5

Pathway Commons::Home

http://www.pathwaycommons.org/pc

Search and visualize public biological pathway information. Single point of access. [ more. This portal has not been updated. Since October 2011. Please use the new PC2 web services. Send us your feedback. Sign up for Pathway Commons announcements. For example, if you enter: BRCA1. You will get back the list of pathways. Containing the keyword "BRCA1", and the list of pathways that contain the BRCA1 gene. For example, if you enter: BRCA1. You will get back the list of proteins, genes, or small molecules.

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metabolomics.chem.agilent.com

Database, Pathway

http://metabolomics.chem.agilent.com/Knowledge-Center/122337-Database-Pathway

Genomics Services and Support. Columns and Sample Preparation. GC and GC/MS Columns-NO IMAGES. LC and LC/MS Columns-NO CONTENT. Parts and Supplies-NO CONTENT. Chromatography and Spectrometry-NO CONTENT. Microarrays and FISH Probes. CGH and CGH SNP. Chemical Standards-MISSING ALSO NEED TOP SITE. Cloning, Cells and Expression. Food Testing and Agriculture. Geochemistry, Mining and Metals. Materials Testing and Research. Proteomics and Protein Sciences. Small Molecule Pharmaceuticals and Generics. Watervill...

drug2gene.info

Drug2Gene - Database statistics

http://www.drug2gene.info/DatabaseStatistics.aspx

Data sources Extended Statistics. Chemical Entities of Biological Interest (ChEBI) is a freely available dictionary of molecular entities focused on ‘small’ chemical compounds. The ChEMBL database focuses on mapping the interactions and functional effects of small molecules binding to their macromolecular targets. The Comparative Toxicogenomics Database (CTD) elucidates molecular mechanisms by which environmental chemicals affect human disease. Pathway Commons is a network biology resource and acts as a ...

blog.lunean.com

Pathway Commons and paxtoolsr: An Introduction - Lunean

http://blog.lunean.com/2016/02/08/introduction-to-pathway-commons-and-paxtoolsr

Pathway Commons and paxtoolsr: An Introduction. Is an aggregation of public pathway databases and provides infrastructure for querying this rich dataset. Pathway Commons databases include: BIND, BioGRID, CORUM, CTD, DIP, DrugBank, HPRD, HumanCyc, IntAct, KEGG, MirTarBase, Panther, PhosphoSitePlus, Reactome, RECON, TRANSFAC. paxtoolsr. Is a package that builds on the strengths of Pathway Commons and its native BioPAX. The slides below give a basic introduction to the Pathway Commons. February 08, 2016.

bitnos.com

Bitnos - Pathways

http://www.bitnos.com/pathways

Observe how genes interact in dynamic graphical models. Online maps depict molecular relationships from areas of active research.In an "open source" approach, this community-fed forum constantly integrates emerging proteomic information from the scientific community. Free, online, open-source curated knowledgebase of biological pathways. Reactome allows: to analyse pathways. WikiPathways is an open, public platform dedicated to the curation of biological pathways by and for the scientific community.

trpatel.com

Trushar R. Patel » Useful Links

http://trpatel.com/useful-links

Biological Pathways Information – http:/ www.pathwaycommons.org. Calculation of Secondary Structure of RNA http:/ www.major.iric.ca/MC-Pipeline. Calculation of Standard Volumes for Protein and RNA molecules http:/ geometry.molmovdb.org/NucProt. Cell Migration Gateway http:/ www.cellmigration.org. Census of Human Soluble Protein Complexes http:/ human.med.utoronto.ca. Database for Protein and Genetic Interactions – http:/ thebiogrid.org. Diseases and Human Body Atlas http:/ www.nextbio.com. List of Tools ...

nar.oxfordjournals.org

Pathway Commons, a web resource for biological pathway data

http://nar.oxfordjournals.org/content/39/suppl_1/D685.abstract

View Current Issue (Volume 44 Issue 14 19 August 2016). Pathway Commons, a web resource for biological pathway data. Ethan G. Cerami. Benjamin E. Gross. Gary D. Bader. Computational Biology Center, Memorial Sloan-Kettering Cancer Center 1275 York Avenue, Box 460, New York, NY 10065,. Tri-Institutional Training Program in Computational Biology and Medicine, New York, USA and. To whom correspondence should be addressed: pc-info{at}pathwaycommons.org. August 24, 2010. October 7, 2010. October 11, 2010.

cbioportal.org

cBioPortal for Cancer Genomics::Results

http://www.cbioportal.org/index.do?tab_index=tab_visualize&cancer_study_list=coadread_tcga_pub&cancer_study_id=coadread_tcga_pub&genetic_profile_ids_PROFILE_MUTATION_EXTENDED=coadread_tcga_pub_mutations&genetic_profile_ids_PROFILE_COPY_NUMBER_ALTERATION=coadread_tcga_pub_gistic&Z_SCORE_THRESHOLD=2.0&case_set_id=coadread_tcga_pub_nonhypermut&case_ids=&gene_list=KRAS+NRAS+BRAF&gene_set_choice=user-defined-list&Action=Submit

Select Data Type Priority:. Build a Custom Case Set for:. Number of Matching Cases:. Enter case IDs below:. Advanced: Onco Query Language (OQL). Select From Recurrently Mutated Genes (MutSig). Select Genes from Recurrent CNAs (Gistic). On the link below to bookmark your results or send by email:. Http:/ www.cbioportal.org/index.do? If you would like to use a shorter URL that will not break in email postings. You can use the. Show samples in OncoPrint. Sort by case id (alphabetical). IGV Quick Start Tutor...

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pathwaycommons.org

Pathway Commons: A Resource for Biological Pathway Analysis

What's inside version 9. Access and discover data integrated from public pathway and interactions databases. Pathway Commons, a web resource for biological pathway data. Cerami et al. NAR (2011). Search the entire collection of pathways. Get details about genes and their interactions. A pathway analysis online textbook: Workflows provide step-by-step instruction to pathway analysis; primers for deep-dives into concepts; case studies illustrate real-world use of methods and resources. The BioPAX Validator...

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Disable Editing in Dashboard define('DISALLOW FILE EDIT', true);. Facebook – Pathway Community Church Regina. Speaking of Life with Dr. Joseph Tkach. The Single Page Archives. I am the way, the truth, and the life. No one can come to the Father except through me. If you are passing through the Regina area we encourage you to stop in and visit us! You won’t be disappointed! The Pathway Community Church is a member congregation of the Grace Communion International Canada. Enjoy sermons Online or On-The-Go!