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The Progenetix oncogenomic resource in 2021.
Huang Q, Carrio-Cordo P, Gao B, Paloots R, Baudis M. Huang Q, et al. Database (Oxford). 2021 Jul 17;2021:baab043. doi: 10.1093/database/baab043. Database (Oxford). 2021. PMID: 34272855 Free PMC article.
Over the last decades, cancer genomic profiling projects have resulted in a large amount of somatic genome variation profiles, however segregated in a multitude of individual studies and datasets. The Progenetix project, initiated in 2001, curates individual cancer CNA pro …
Over the last decades, cancer genomic profiling projects have resulted in a large amount of somatic genome variation profiles, however segre …
Progenetix: 12 years of oncogenomic data curation.
Cai H, Kumar N, Ai N, Gupta S, Rath P, Baudis M. Cai H, et al. Nucleic Acids Res. 2014 Jan;42(Database issue):D1055-62. doi: 10.1093/nar/gkt1108. Epub 2013 Nov 12. Nucleic Acids Res. 2014. PMID: 24225322 Free PMC article.
DNA copy number aberrations (CNAs) can be found in the majority of cancer genomes and are crucial for understanding the potential mechanisms underlying tumor initiation and progression. Since the first release in 2001, the Progenetix project (http://www.progenetix.o …
DNA copy number aberrations (CNAs) can be found in the majority of cancer genomes and are crucial for understanding the potential mechanisms …
DNA copy number imbalances in primary cutaneous lymphomas.
Gug G, Huang Q, Chiticariu E, Solovan C, Baudis M. Gug G, et al. J Eur Acad Dermatol Venereol. 2019 Jun;33(6):1062-1075. doi: 10.1111/jdv.15442. Epub 2019 Mar 14. J Eur Acad Dermatol Venereol. 2019. PMID: 30659659
The collected data presented in this study are publicly available through the 'Progenetix' online repository....
The collected data presented in this study are publicly available through the 'Progenetix' online repository....
Progenetix.net: an online repository for molecular cytogenetic aberration data.
Baudis M, Cleary ML. Baudis M, et al. Bioinformatics. 2001 Dec;17(12):1228-9. doi: 10.1093/bioinformatics/17.12.1228. Bioinformatics. 2001. PMID: 11751233
In contrast, few of the (molecular-) cytogenetic aberration data collected in the last decades are available in a format suitable for data mining procedures. www.progenetix.net is a new online repository for previously published chromosomal aberration data, allowing the ad …
In contrast, few of the (molecular-) cytogenetic aberration data collected in the last decades are available in a format suitable for data m …
Inferring progression models for CGH data.
Liu J, Bandyopadhyay N, Ranka S, Baudis M, Kahveci T. Liu J, et al. Bioinformatics. 2009 Sep 1;25(17):2208-15. doi: 10.1093/bioinformatics/btp365. Epub 2009 Jun 15. Bioinformatics. 2009. PMID: 19528087 Free article.
We used this measure to create an evolutionary tree for multiple cancers. Our experiments on Progenetix database show that our markers are largely consistent to the reported hot-spot imbalances and most frequent imbalances. ...
We used this measure to create an evolutionary tree for multiple cancers. Our experiments on Progenetix database show that our marker …
Allele-specific loss of heterozygosity in multiple colorectal adenomas: toward an integrated molecular cytogenetic map II.
Mao X, Hamoudi RA, Talbot IC, Baudis M. Mao X, et al. Cancer Genet Cytogenet. 2006 May;167(1):1-14. doi: 10.1016/j.cancergencyto.2005.08.030. Cancer Genet Cytogenet. 2006. PMID: 16682279
To compare our data to previous reports, we determined the band-specific frequency of chromosomal imbalances in CRC karyotypes reported in the Mitelman database, and from the CGH results of cases accessible through the PROGENETIX website. Furthermore, published genome-wide …
To compare our data to previous reports, we determined the band-specific frequency of chromosomal imbalances in CRC karyotypes reported in t …
Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data.
Baudis M. Baudis M. BMC Cancer. 2007 Dec 18;7:226. doi: 10.1186/1471-2407-7-226. BMC Cancer. 2007. PMID: 18088415 Free PMC article.
BACKGROUND: Chromosomal abnormalities have been associated with most human malignancies, with gains and losses on some genomic regions associated with particular entities. METHODS: Of the 15429 cases collected for the Progenetix molecular-cytogenetic database, 5918 maligna …
BACKGROUND: Chromosomal abnormalities have been associated with most human malignancies, with gains and losses on some genomic regions assoc …
Classification and feature selection algorithms for multi-class CGH data.
Liu J, Ranka S, Kahveci T. Liu J, et al. Bioinformatics. 2008 Jul 1;24(13):i86-95. doi: 10.1093/bioinformatics/btn145. Bioinformatics. 2008. PMID: 18586749 Free PMC article.
We compared our methods against the best wrapper-based and filter-based approaches that have been used for feature selection of large dimensional biological data. Our results on datasets generated from the Progenetix database, suggests that our methods are considerably sup …
We compared our methods against the best wrapper-based and filter-based approaches that have been used for feature selection of large dimens …
Genetic losses in breast cancer: toward an integrated molecular cytogenetic map.
Mao X, Hamoudi RA, Zhao P, Baudis M. Mao X, et al. Cancer Genet Cytogenet. 2005 Jul 15;160(2):141-51. doi: 10.1016/j.cancergencyto.2004.12.018. Cancer Genet Cytogenet. 2005. PMID: 15993270
To compare our data to previous reports, we determined the band-specific frequency of chromosomal imbalances in breast cancer karyotypes reported in the Mitelman database, and from the CGH results of cases accessible through the Progenetix website. Furthermore, published L …
To compare our data to previous reports, we determined the band-specific frequency of chromosomal imbalances in breast cancer karyotypes rep …