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Progenetix - genomic copy number aberrations in cancer

Abbreviation:Progenetix

General Information

The Progenetix database provides an overview of copy number abnormalities in human cancer from Comparative Genomic Hybridization (CGH) experiments. With 30817 cases from 1016 publications (Oct 2013), Progenetix is the largest curated database for whole genome CGH profiles. The current dataset contains 20621 chromosomal CGH and 10302 profiles from genomic array experiments. This data covers 365 diagnostic entities according to the International Classification of Disease in Oncology (ICD-O 3). Additionally, the website attempts to lists all publications referring to cancer genome profiling experiments.

Homepage http://www.progenetix.org

Countries that developed this resource Switzerland

Created in 2001

Taxonomic range

Homo sapiens

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: Progenetix; Progenetix - genomic copy number aberrations in cancer; DOI: https://doi.org/10.25504/FAIRsharing.65tdnz; Last edited: Dec. 19, 2019, 3:47 p.m.; Last accessed: Jun 02 2020 3:58 p.m.

This record is maintained by mbaudis ORCID

Record updated: Dec. 19, 2019, 9:28 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.65tdnz' by 'The FAIRsharing Team' at 09:28, 19 Dec 2019 (approved):

	'licences' has been modified:
		Before:
			Creative Commons Attribution-NonCommercial-NoDerivs 2.5 Switzerland (CC BY-NC-ND 2.5 CH)|https://creativecommons.org/licenses/by-nc-nd/2.5/ch/|Data
			Progentix Website Terms and Conditions|http://www.progenetix.org/Wiki/ProgenetixGuide/RegistrationAndLicensing|Data
		After:
			Creative Commons Attribution-NonCommercial-NoDerivs 2.5 Switzerland (CC BY-NC-ND 2.5 CH)|https://creativecommons.org/licenses/by-nc-nd/2.5/ch/|Data
		Added:
		Removed:
			Progentix Website Terms and Conditions|http://www.progenetix.org/Wiki/ProgenetixGuide/RegistrationAndLicensing|Data

	'accessPoints' has been modified:
		Before:
			Other|http://www.progenetix.org/Wiki/ProgenetixGuide/ProgenetixAPI|Protogenetix API
		After:
			Other|https://info.progenetix.org/doc/+generated-doc-API-api/|API::api.cgi Perl Code
		Added:
			Other|https://info.progenetix.org/doc/+generated-doc-API-api/|API::api.cgi Perl Code
		Removed:
			Other|http://www.progenetix.org/Wiki/ProgenetixGuide/ProgenetixAPI|Protogenetix API

	'supportLinks' has been modified:
		Before:
			help|http://www.progenetix.org/Wiki/ProgenetixGuide
			help|@progenetix
			online documentation|http://www.progenetix.org/cgi-bin/reader.cgi?project=progenetix&tags_m=guide
		After:
			blog|https://info.progenetix.org/categories/news.html
			help|https://info.progenetix.org/categories/howto.html
			online documentation|https://info.progenetix.org/categories/about.html
			twitter|@progenetix
		Added:
			blog|https://info.progenetix.org/categories/news.html
			help|https://info.progenetix.org/categories/howto.html
			online documentation|https://info.progenetix.org/categories/about.html
			twitter|@progenetix
		Removed:
			help|http://www.progenetix.org/Wiki/ProgenetixGuide
			help|@progenetix
			online documentation|http://www.progenetix.org/cgi-bin/reader.cgi?project=progenetix&tags_m=guide

	'dataProcesses' has been modified:
		Before:
			manual curation
			Query (Gene CNA Frequencies)
			Sample Search
			register
		After:
			manual curation
			Query
			Sample Search
			upload
			browse publications
		Added:
			Query
			upload
			browse publications
		Removed:
			Query (Gene CNA Frequencies)
			register

	'onto_domains' has been modified:
		Before:
			DNA microarray
			Gene expression data
			cancer
			chromosomal aberration
			comparative genomic hybridization by array
		After:
			Biocuration
			DNA microarray
			Gene expression data
			cancer
			chromosomal aberration
			comparative genomic hybridization by array
			curated information
			literature curation
		Added:
			Biocuration
			curated information
			literature curation
		Removed:

In Collections

RDA Covid-19 WG Resources

Support

General

blog	News
help	https://info.progenetix.org/categories/h ...
online documentation	https://info.progenetix.org/categories/a ...
twitter	@progenetix

Additional Information

Contact

Michael Baudis ORCID

Tools

No tools defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Creative Commons Attribution-NonCommercial-NoDerivs 2.5 Switzerland (CC BY-NC-ND 2.5 CH)

Data Curation

manual curation	No link recorded
upload	https://info.progenetix.org/uploader.html

Data Access

Query	https://beacon.progenetix.org/beaconplus-ui/
Sample Search	https://progenetix.org/cgi-bin/pgx_biosamples.cgi?project=progenetix&d ...
browse publications	https://info.progenetix.org/publications.html?&filters=genomes:%3E0

Other Web Services

API::api.cgi Perl Code

https://info.progenetix.org/doc/+generated-doc-API-api/

Publications

Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data

Baudis M
BMC Cancer. 2007 Dec 18;7:226. 2007

View Paper (PubMed) View Publication

Online database and bioinformatics toolbox to support data mining in cancer cytogenetics.

Baudis M
Biotechniques. 2006 Mar;40(3):269-70, 272. 2006

View Paper (PubMed) View Publication

Progenetix.net: an online repository for molecular cytogenetic aberration data.

Baudis M, Cleary ML.
Bioinformatics. 2001 Dec;17(12):1228-9. 2001

View Paper (PubMed) View Publication

Progenetix: 12 years of oncogenomic data curation.

Cai H,Kumar N,Ai N,Gupta S,Rath P,Baudis M
Nucleic Acids Res 2013

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

arrayMap - Genome Profiles in Cancer

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by mbaudis ORCID

Maintains

Michael Baudis Group, Institute of Molecular Life Sciences, Zurich, Switzerland (Lab)

Progenetix - genomic copy number aberrations in cancer

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