Progenetix - genomic copy number aberrations in cancer
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Progenetix - genomic copy number aberrations in cancer
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
Progenetix
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
progenetix
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
Names
More detailed information about this field from each metasource.
Progenetix - genomic copy number aberrations in cancer
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
Progenetix
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
progenetix
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
Other names: Progenetix, progenetix
Names
More detailed information about this field from each metasource.
Progenetix - genomic copy number aberrations in cancer
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
Progenetix
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
progenetix
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
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.
Description
More detailed information about this field from each metasource.
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.
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
Copy number abnormalities in human cancer from comparative genomic hybridization experiments
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
The Progenetix database provides an overview of copy number abnormalities in human cancer from currently 32548 array and chromosomal Comparative Genomic Hybridization (CGH) experiments, as well as Whole Genome or Whole Exome Sequencing (WGS, WES) studies. The cancer profile data in Progenetix was curated from 1031 articles and represents 366 different cancer types, according to the International classification of Diseases in Oncology (ICD-O).
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
The Progenetix database provides an overview of copy number abnormalities in human cancer from currently 113322 array and chromosomal Comparative Genomic Hybridization (CGH) experiments, as well as Whole Genome or Whole Exome Sequencing (WGS, WES) studies. The cancer profile data in Progenetix was curated from 1600 articles and represents 420 and 542 different cancer types, according to the International classification of Diseases in Oncology (ICD-O) and NCIt "neoplasm" classification, respectively. Additionally, the website attempts to identify and present all publications (currently 3962 articles), referring to cancer genome profiling experiments.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
Webpage:
http://www.progenetix.orgWebpage
More detailed information about this field from each metasource.
http://www.progenetix.org
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
https://www.progenetix.org/
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
http://progenetix.org/
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
Licence:
Name: Creative Commons Attribution-NonCommercial-NoDerivs 2.5 Switzerland (CC BY-NC-ND 2.5 CH)Licence name
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Creative Commons Attribution-NonCommercial-NoDerivs 2.5 Switzerland (CC BY-NC-ND 2.5 CH)
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
CC
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
CC-BY-SA-4.0
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
Licence URL
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https://creativecommons.org/licenses/by-nc-nd/2.5/ch/
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
https://creativecommons.org/licenses/by-sa/4.0/
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
Publications:
(6)
Publications
More detailed information about this field from each metasource.
Progenetix.net: an online repository for molecular cytogenetic aberration data
PMID: 11751233
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data
PMID: 18088415
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
Progenetix: 12 years of oncogenomic data curation
PMID: 24225322
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
Online database and bioinformatics toolbox to support data mining in cancer cytogenetics
PMID: 16568815
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
http://dx.doi.org/10.1093/nar/gkt1108
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
http://dx.doi.org/10.1093/bioinformatics/17.12.1228
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
Publications
More detailed information about this field from each metasource.
Progenetix.net: an online repository for molecular cytogenetic aberration data
PMID: 11751233
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data
PMID: 18088415
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
Progenetix: 12 years of oncogenomic data curation
PMID: 24225322
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
Online database and bioinformatics toolbox to support data mining in cancer cytogenetics
PMID: 16568815
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
http://dx.doi.org/10.1093/nar/gkt1108
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
http://dx.doi.org/10.1093/bioinformatics/17.12.1228
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
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Progenetix.net: an online repository for molecular cytogenetic aberration data
PubMed citations: 81.
81 articles citing: Progenetix.net: an online repository for molecular cytogenetic aberration data
Conditional prediction of consecutive tumor evolution using cancer progression models: What genotype comes next? PMID:34932572
The Progenetix oncogenomic resource in 2021. PMID:34272855
Systemic Multi-Omics Analysis Reveals Amplified P4HA1 Gene Associated With Prognostic and Hypoxic Regulation in Breast Cancer. PMID:33692831
Dissecting the impact of regional identity and the oncogenic role of human-specific NOTCH2NL in an hESC model of H3.3G34R-mutant glioma. PMID:33631117
Interleukin-6 trans-signaling is a candidate mechanism to drive progression of human DCCs during clinical latency. PMID:33020483
Molecular analyses of glioblastoma stem-like cells and glioblastoma tissue. PMID:32634135
Geographic assessment of cancer genome profiling studies. PMID:32239182
Modelling cancer progression using Mutual Hazard Networks. PMID:31250881
Analytical validation and chromosomal distribution of regions of homozygosity by oligonucleotide array comparative genomic hybridization from normal prenatal and postnatal case series. PMID:30886647
ACGH detects distinct genomic alterations of primary intrahepatic cholangiocarcinomas and matched lymph node metastases and identifies a poor prognosis subclass. PMID:30006612
Proof of concept: prognostic value of the plasmatic concentration of circulating cell free DNA in desmoid tumors using ddPCR. PMID:29719606
Disseminated tumour cells with highly aberrant genomes are linked to poor prognosis in operable oesophageal adenocarcinoma. PMID:28728164
Development of the SIOPE DIPG network, registry and imaging repository: a collaborative effort to optimize research into a rare and lethal disease. PMID:28110411
A Modular Repository-based Infrastructure for Simulation Model Storage and Execution Support in the Context of In Silico Oncology and In Silico Medicine. PMID:27812280
A novel microfluidic platform for size and deformability based separation and the subsequent molecular characterization of viable circulating tumor cells. PMID:26789903
Genome-wide copy number changes and CD133 expression characterized distinct subset of colon polyps: differentiation between incidental polyps and cancer-associated polyps. PMID:26206347
Sequencing Overview of Ewing Sarcoma: A Journey across Genomic, Epigenomic and Transcriptomic Landscapes. PMID:26193259
DUSP4 deficiency caused by promoter hypermethylation drives JNK signaling and tumor cell survival in diffuse large B cell lymphoma. PMID:25847947
FAM96A is a novel pro-apoptotic tumor suppressor in gastrointestinal stromal tumors. PMID:25716227
Identification of genomic alterations in pancreatic cancer using array-based comparative genomic hybridization. PMID:25502777
arrayMap 2014: an updated cancer genome resource. PMID:25428357
Establishment and Molecular Cytogenetic Characterization of a Cell Culture Model of Head and Neck Squamous Cell Carcinoma (HNSCC). PMID:24710094
CLPTM1L promotes growth and enhances aneuploidy in pancreatic cancer cells. PMID:24648346
Quantitative measurement of melanoma spread in sentinel lymph nodes and survival. PMID:24558354
Discovering subgroups of patients from DNA copy number data using NMF on compacted matrices. PMID:24278162
Progenetix: 12 years of oncogenomic data curation. PMID:24225322
The genetic heterogeneity and mutational burden of engineered melanomas in zebrafish models. PMID:24148783
Breast tumors with elevated expression of 1q candidate genes confer poor clinical outcome and sensitivity to Ras/PI3K inhibition. PMID:24147022
Diagnostic leukapheresis enables reliable detection of circulating tumor cells of nonmetastatic cancer patients. PMID:24065821
Selection and adaptation during metastatic cancer progression. PMID:24048069
Are morphological criteria sufficient for the identification of circulating tumor cells in renal cancer? PMID:24044779
Epigenetic silencing of monoallelically methylated miRNA loci in precancerous colorectal lesions. PMID:23857251
Learning oncogenetic networks by reducing to mixed integer linear programming. PMID:23799047
Next generation sequencing in cancer research and clinical application. PMID:23406336
Functional genomic analysis of chromosomal aberrations in a compendium of 8000 cancer genomes. PMID:23132910
Loss-of-heterozygosity on chromosome 19q in early-stage serous ovarian cancer is associated with recurrent disease. PMID:22967087
Specific genomic regions are differentially affected by copy number alterations across distinct cancer types, in aggregated cytogenetic data. PMID:22937079
Copy-number-aware differential analysis of quantitative DNA sequencing data. PMID:22879430
Integrative genome-wide expression profiling identifies three distinct molecular subgroups of renal cell carcinoma with different patient outcome. PMID:22824167
DNA copy number alterations in central primitive neuroectodermal tumors and tumors of the pineal region: an international individual patient data meta-analysis. PMID:22772606
Mathematical and statistical modeling in cancer systems biology. PMID:22754537
Gastrointestinal adenocarcinomas of the esophagus, stomach, and colon exhibit distinct patterns of genome instability and oncogenesis. PMID:22751462
arrayMap: a reference resource for genomic copy number imbalances in human malignancies. PMID:22629346
Transient telomere dysfunction induces chromosomal instability and promotes carcinogenesis. PMID:22622037
Improved multiplex ligation-dependent probe amplification analysis identifies a deleterious PMS2 allele generated by recombination with crossover between PMS2 and PMS2CL. PMID:22585707
Online resources for genomic structural variation. PMID:22228017
Pancreatic cancer susceptibility loci and their role in survival. PMID:22125638
Integrative cancer genomics (IntOGen) in Biomart. PMID:21903633
Use of integrative epigenetic and cytogenetic analyses to identify novel tumor-suppressor genes in malignant melanoma. PMID:21606880
Chromosome 8q24 variants are associated with prostate cancer risk in a high risk population of African ancestry. PMID:21557270
Centromere fission, not telomere erosion, triggers chromosomal instability in human carcinomas. PMID:21478459
Myc-mediated repression of microRNA-34a promotes high-grade transformation of B-cell lymphoma by dysregulation of FoxP1. PMID:21460242
CDCOCA: a statistical method to define complexity dependence of co-occuring chromosomal aberrations. PMID:21371302
CaSNP: a database for interrogating copy number alterations of cancer genome from SNP array data. PMID:20972221
Copy number analysis identifies novel interactions between genomic loci in ovarian cancer. PMID:20844748
Three dysregulated miRNAs control kallikrein 10 expression and cell proliferation in ovarian cancer. PMID:20354523
A rapid, sensitive, reproducible and cost-effective method for mutation profiling of colon cancer and metastatic lymph nodes. PMID:20233444
A double-layered mixture model for the joint analysis of DNA copy number and gene expression data. PMID:20170400
IntOGen: integration and data mining of multidimensional oncogenomic data. PMID:20111033
A genome-wide association study identifies pancreatic cancer susceptibility loci on chromosomes 13q22.1, 1q32.1 and 5p15.33. PMID:20101243
Heterochromatin protein 1alpha: a hallmark of cell proliferation relevant to clinical oncology. PMID:20049717
Quantifying cancer progression with conjunctive Bayesian networks. PMID:19692554
Rhomboid domain containing 2 (RHBDD2): a novel cancer-related gene over-expressed in breast cancer. PMID:19616622
Association of chromosome 8q variants with prostate cancer risk in Caucasian and Hispanic men. PMID:19528667
Public databases and software for the pathway analysis of cancer genomes. PMID:19455256
The apoptotic machinery as a biological complex system: analysis of its omics and evolution, identification of candidate genes for fourteen major types of cancer, and experimental validation in CML and neuroblastoma. PMID:19402918
Large-scale genomic analysis of ovarian carcinomas. PMID:19383377
Combined use of expression and CGH arrays pinpoints novel candidate genes in Ewing sarcoma family of tumors. PMID:19144156
Conventional and molecular cytogenetics of human non-medullary thyroid carcinoma: characterization of eight cell line models and review of the literature on clinical samples. PMID:19087340
Chromosomal changes characterize head and neck cancer with poor prognosis. PMID:18810378
Classification and feature selection algorithms for multi-class CGH data. PMID:18586749
Classification of human cancers based on DNA copy number amplification modeling. PMID:18477412
Comprehensive characterization of genomic aberrations in gangliogliomas by CGH, array-based CGH and interphase FISH. PMID:18371186
Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data. PMID:18088415
Genomic alterations in sporadic synchronous primary breast cancer using array and metaphase comparative genomic hybridization. PMID:17603634
From bytes to bedside: data integration and computational biology for translational cancer research. PMID:17319736
Array-CGH and breast cancer. PMID:16817944
CGH-Profiler: data mining based on genomic aberration profiles. PMID:16042799
Microarray comparative genomic hybridization detection of chromosomal imbalances in uterine cervix carcinoma. PMID:16004614
The interactive online SKY/M-FISH & CGH database and the Entrez cancer chromosomes search database: linkage of chromosomal aberrations with the genome sequence. PMID:15934046
arrayCGHbase: an analysis platform for comparative genomic hybridization microarrays. PMID:15910681 -
Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data
PubMed citations: 69.
69 articles citing: Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data
The genomic landscape of cholangiocarcinoma reveals the disruption of post-transcriptional modifiers. PMID:35650238
The ELIXIR Human Copy Number Variations Community: building bioinformatics infrastructure for research. PMID:34367618
The Progenetix oncogenomic resource in 2021. PMID:34272855
Identifying Key Somatic Copy Number Alterations Driving Dysregulation of Cancer Hallmarks in Lower-Grade Glioma. PMID:34163522
Signatures of Discriminative Copy Number Aberrations in 31 Cancer Subtypes. PMID:34054918
Systematic analysis of enhancer regulatory circuit perturbation driven by copy number variations in malignant glioma. PMID:33537074
Molecular Mechanisms of Colon Cancer Progression and Metastasis: Recent Insights and Advancements. PMID:33374459
DNA Copy Number Changes in Diffuse Large B Cell Lymphomas. PMID:33344238
TOOme: A Novel Computational Framework to Infer Cancer Tissue-of-Origin by Integrating Both Gene Mutation and Expression. PMID:32509741
The Landscape of Somatic Copy Number Alterations in Head and Neck Squamous Cell Carcinoma. PMID:32226775
Molecular analysis of V617F mutation in Janus kinase 2 gene of breast cancer patients. PMID:31516339
Highly Multiplexed Fluorescence in Situ Hybridization for in Situ Genomics. PMID:30862547
Cancer type prediction based on copy number aberration and chromatin 3D structure with convolutional neural networks. PMID:30367576
Association Analysis of Somatic Copy Number Alteration Burden With Breast Cancer Survival. PMID:30337938
Speciation Theory of Carcinogenesis Explains Karyotypic Individuality and Long Latencies of Cancers. PMID:30096943
Genome-scale analysis identifies paralog lethality as a vulnerability of chromosome 1p loss in cancer. PMID:29955178
The molecular characteristics of colorectal cancer: Implications for diagnosis and therapy. PMID:29928381
Identification of copy number alterations in colon cancer from analysis of amplicon-based next generation sequencing data. PMID:29755661
Recurrent copy number alterations in young women with breast cancer. PMID:29545918
Evidence for a pre-malignant cell line in a skin biopsy from a patient with Nijmegen breakage syndrome. PMID:29445421
DNA copy number changes define spatial patterns of heterogeneity in colorectal cancer. PMID:28120820
Phylooncogenomics: Examining the cancer genome in the context of vertebrate evolution. PMID:27896055
Analysis of gene copy number changes in tumor phylogenetics. PMID:27688796
ABO blood groups in relation to breast carcinoma incidence and associated prognostic factors in Moroccan women. PMID:27241035
Integrated Genomics for Pinpointing Survival Loci within Arm-Level Somatic Copy Number Alterations. PMID:27165745
TumorTracer: a method to identify the tissue of origin from the somatic mutations of a tumor specimen. PMID:26429708
Comparison of structural genetics of non-schistosoma-associated squamous cell carcinoma of the urinary bladder. PMID:26339383
Genotype and Haplotype Analyses of TP53 Gene in Breast Cancer Patients: Association with Risk and Clinical Outcomes. PMID:26226484
Abundant copy-number loss of CYCLOPS and STOP genes in gastric adenocarcinoma. PMID:26205786
The fitness consequences of aneuploidy are driven by condition-dependent gene effects. PMID:26011532
Computational characterisation of cancer molecular profiles derived using next generation sequencing. PMID:25691827
arrayMap 2014: an updated cancer genome resource. PMID:25428357
CLPTM1L promotes growth and enhances aneuploidy in pancreatic cancer cells. PMID:24648346
Classification of non-small cell lung cancer based on copy number alterations. PMID:24505469
Chromothripsis-like patterns are recurring but heterogeneously distributed features in a survey of 22,347 cancer genome screens. PMID:24476156
Will we cure cancer by sequencing thousands of genomes? PMID:24330806
Progenetix: 12 years of oncogenomic data curation. PMID:24225322
Individual karyotypes at the origins of cervical carcinomas. PMID:24134916
Pan-cancer patterns of somatic copy number alteration. PMID:24071852
Comparative oncogenomic analysis of copy number alterations in human and zebrafish tumors enables cancer driver discovery. PMID:24009526
Oncogene GAEC1 regulates CAPN10 expression which predicts survival in esophageal squamous cell carcinoma. PMID:23687414
High MET gene copy number predicted poor prognosis in primary intestinal diffuse large B-cell lymphoma. PMID:23379953
Specific genomic regions are differentially affected by copy number alterations across distinct cancer types, in aggregated cytogenetic data. PMID:22937079
Integrative genome-wide expression profiling identifies three distinct molecular subgroups of renal cell carcinoma with different patient outcome. PMID:22824167
DNA copy number alterations in central primitive neuroectodermal tumors and tumors of the pineal region: an international individual patient data meta-analysis. PMID:22772606
A newly characterized human well-differentiated liposarcoma cell line contains amplifications of the 12q12-21 and 10p11-14 regions. PMID:22678079
arrayMap: a reference resource for genomic copy number imbalances in human malignancies. PMID:22629346
Genome-wide high-resolution aCGH analysis of gestational choriocarcinomas. PMID:22253721
Real-time PCR-based assay to quantify the relative amount of human and mouse tissue present in tumor xenografts. PMID:22176647
Spontaneous transformation of murine epithelial cells requires the early acquisition of specific chromosomal aneuploidies and genomic imbalances. PMID:22161874
Pancreatic cancer susceptibility loci and their role in survival. PMID:22125638
Shortened telomere length is associated with increased risk of cancer: a meta-analysis. PMID:21695195
A model for random genetic damage directing selection of diploid or aneuploid tumours. PMID:21535262
Network-guided analysis of genes with altered somatic copy number and gene expression reveals pathways commonly perturbed in metastatic melanoma. PMID:21494657
CDCOCA: a statistical method to define complexity dependence of co-occuring chromosomal aberrations. PMID:21371302
Systems biology and genomics of breast cancer. PMID:21047916
MAL2 and tumor protein D52 (TPD52) are frequently overexpressed in ovarian carcinoma, but differentially associated with histological subtype and patient outcome. PMID:20846453
Highly aneuploid zebrafish malignant peripheral nerve sheath tumors have genetic alterations similar to human cancers. PMID:20837522
Genomic architecture characterizes tumor progression paths and fate in breast cancer patients. PMID:20592421
An algorithm for classifying tumors based on genomic aberrations and selecting representative tumor models. PMID:20569491
Identifying mRNA targets of microRNA dysregulated in cancer: with application to clear cell Renal Cell Carcinoma. PMID:20420713
The landscape of somatic copy-number alteration across human cancers. PMID:20164920
Integrating the multiple dimensions of genomic and epigenomic landscapes of cancer. PMID:20108112
Aurora kinase inhibitor PHA-739358 suppresses growth of hepatocellular carcinoma in vitro and in a xenograft mouse model. PMID:19724687
Quantifying cancer progression with conjunctive Bayesian networks. PMID:19692554
Telomere length in blood cells and breast cancer risk: investigations in two case-control studies. PMID:19543829
Chromosome 9 arm-specific telomere length and breast cancer risk. PMID:19535548
Parallel progression of primary tumours and metastases. PMID:19308069
Construction of oncogenetic tree models reveals multiple pathways of oral cancer progression. PMID:19267402 -
Progenetix: 12 years of oncogenomic data curation
PubMed citations: 19.
19 articles citing: Progenetix: 12 years of oncogenomic data curation
The Progenetix oncogenomic resource in 2021. PMID:34272855
Signatures of Discriminative Copy Number Aberrations in 31 Cancer Subtypes. PMID:34054918
Identification and Development of Subtypes With Poor Prognosis in Pan-Gynecological Cancer Based on Gene Expression in the Glycolysis-Cholesterol Synthesis Axis. PMID:33842342
Dissecting the impact of regional identity and the oncogenic role of human-specific NOTCH2NL in an hESC model of H3.3G34R-mutant glioma. PMID:33631117
Extracting and modeling geographic information from scientific articles. PMID:33406109
Chromosomal abnormality, laboratory techniques, tools and databases in molecular Cytogenetics. PMID:33104991
Geographic assessment of cancer genome profiling studies. PMID:32239182
The Landscape of Somatic Copy Number Alterations in Head and Neck Squamous Cell Carcinoma. PMID:32226775
Enabling population assignment from cancer genomes with SNP2pop. PMID:32179800
Comprehensive identification and characterization of somatic copy number alterations in triple‑negative breast cancer. PMID:31894314
Proof of concept: prognostic value of the plasmatic concentration of circulating cell free DNA in desmoid tumors using ddPCR. PMID:29719606
oncoNcRNA: A Web Portal for Exploring the Non-Coding RNAs with Oncogenic Potentials in Human Cancers. PMID:29657279
Integrated Molecular Meta-Analysis of 1,000 Pediatric High-Grade and Diffuse Intrinsic Pontine Glioma. PMID:28966033
Establishment and genomic characterization of the new chordoma cell line Chor-IN-1. PMID:28835717
The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases. PMID:26615188
A role for the mitochondrial pyruvate carrier as a repressor of the Warburg effect and colon cancer cell growth. PMID:25458841
arrayMap 2014: an updated cancer genome resource. PMID:25428357
Human cancer databases (review). PMID:25369839
Changes in colorectal carcinoma genomes under anti-EGFR therapy identified by whole-genome plasma DNA sequencing. PMID:24676216 -
Online database and bioinformatics toolbox to support data mining in cancer cytogenetics
PubMed citations: 8.
8 articles citing: Online database and bioinformatics toolbox to support data mining in cancer cytogenetics
Chromosomal abnormality, laboratory techniques, tools and databases in molecular Cytogenetics. PMID:33104991
Progenetix: 12 years of oncogenomic data curation. PMID:24225322
DNA copy number alterations in central primitive neuroectodermal tumors and tumors of the pineal region: an international individual patient data meta-analysis. PMID:22772606
Role of Pirh2 in mediating the regulation of p53 and c-Myc. PMID:22125490
Recurrent RECQL4 imbalance and increased gene expression levels are associated with structural chromosomal instability in sporadic osteosarcoma. PMID:19242607
Classification and feature selection algorithms for multi-class CGH data. PMID:18586749
Comprehensive characterization of genomic aberrations in gangliogliomas by CGH, array-based CGH and interphase FISH. PMID:18371186
Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data. PMID:18088415 - http://dx.doi.org/10.1093/nar/gkt1108
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biocuration
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
cancer
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
chromosomal aberration
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
comparative genomic hybridization
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
curated information
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
dna microarray
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
gene expression data
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
literature curation
metasource: Fairsharing.org
version: 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: Jan 03 2022 7:05 p.m.
human genes and diseases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
general polymorphism databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
dna sequences
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
diffuse intrinsic pontine glioma (dipg)
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
skin cancer genomics (cnhl)
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
abnormalities
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
bioinformatics
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
cancer genome
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
computational genomics
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
genomics
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
homo sapiens
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
malignancies
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
oncology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
dna structural variation
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
dna mutation
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
ontology and terminology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
Tags
More detailed information about this field from each metasource.
biocuration
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
cancer
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
chromosomal aberration
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
comparative genomic hybridization
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
curated information
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
dna microarray
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
gene expression data
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
metasource: re3data.org
version: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
literature curation
metasource: Fairsharing.orgversion: 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: Jan 03 2022 7:05 p.m.
human genes and diseases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
general polymorphism databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
dna sequences
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
diffuse intrinsic pontine glioma (dipg)
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
skin cancer genomics (cnhl)
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
abnormalities
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
bioinformatics
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
cancer genome
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
computational genomics
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
genomics
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
metasource: bio.tools
version: extracted_at: 2022-11-04T11:29:59.911835
homo sapiens
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
malignancies
metasource: re3data.orgversion: re3data.org: Progenetix; editing status 2019-02-19; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3KV46 last accessed: 2022-11-04
oncology
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
dna structural variation
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
dna mutation
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
ontology and terminology
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:29:59.911835
biocuration cancer chromosomal aberration comparative genomic hybridization dna microarray gene expression literature curation human genes and diseases polymorphism dna sequences diffuse intrinsic pontine glioma (dipg) skin cancer genomics (cnhl) abnormalities bioinformatics cancer genome computational genomics genomics homo sapiens malignancies oncology dna structural variation dna mutation ontology and terminology
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