Proteogenomic data and resources for pan-cancer analysis
Summary The National Cancer Institute's Clinical Proteomic Tumor Analysis Consortium
(CPTAC) investigates tumors from a proteogenomic perspective, creating rich multi-omics …
(CPTAC) investigates tumors from a proteogenomic perspective, creating rich multi-omics …
Identification of a novel cuproptosis-related gene signature and integrative analyses in patients with lower-grade gliomas
J Bao, W Lu, H Duan, Y Ye, J Li, W Liao, Y Li… - Frontiers in …, 2022 - frontiersin.org
Background Cuproptosis is a newly discovered unique non-apoptotic programmed cell
death distinguished from known death mechanisms like ferroptosis, pyroptosis, and …
death distinguished from known death mechanisms like ferroptosis, pyroptosis, and …
Machine learning-based integration develops an immune-derived lncRNA signature for improving outcomes in colorectal cancer
Z Liu, L Liu, S Weng, C Guo, Q Dang, H Xu… - Nature …, 2022 - nature.com
Long noncoding RNAs (lncRNAs) are recently implicated in modifying immunology in
colorectal cancer (CRC). Nevertheless, the clinical significance of immune-related lncRNAs …
colorectal cancer (CRC). Nevertheless, the clinical significance of immune-related lncRNAs …
[HTML][HTML] Cell-of-origin patterns dominate the molecular classification of 10,000 tumors from 33 types of cancer
KA Hoadley, C Yau, T Hinoue, DM Wolf, AJ Lazar… - Cell, 2018 - cell.com
We conducted comprehensive integrative molecular analyses of the complete set of tumors
in The Cancer Genome Atlas (TCGA), consisting of approximately 10,000 specimens and …
in The Cancer Genome Atlas (TCGA), consisting of approximately 10,000 specimens and …
Comprehensive molecular characterization of muscle-invasive bladder cancer
We report a comprehensive analysis of 412 muscle-invasive bladder cancers characterized
by multiple TCGA analytical platforms. Fifty-eight genes were significantly mutated, and the …
by multiple TCGA analytical platforms. Fifty-eight genes were significantly mutated, and the …
Genomic analyses identify molecular subtypes of pancreatic cancer
Integrated genomic analysis of 456 pancreatic ductal adenocarcinomas identified 32
recurrently mutated genes that aggregate into 10 pathways: KRAS, TGF-β, WNT, NOTCH …
recurrently mutated genes that aggregate into 10 pathways: KRAS, TGF-β, WNT, NOTCH …
[HTML][HTML] Dynamic CD8+ T cell responses to cancer immunotherapy in human regional lymph nodes are disrupted in metastatic lymph nodes
MK Rahim, TLH Okholm, KB Jones, EE McCarthy… - Cell, 2023 - cell.com
CD8+ T cell responses are critical for anti-tumor immunity. While extensively profiled in the
tumor microenvironment, recent studies in mice identified responses in lymph nodes (LNs) …
tumor microenvironment, recent studies in mice identified responses in lymph nodes (LNs) …
TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data
Abstract The Cancer Genome Atlas (TCGA) research network has made public a large
collection of clinical and molecular phenotypes of more than 10 000 tumor patients across …
collection of clinical and molecular phenotypes of more than 10 000 tumor patients across …
Comprehensive and integrative genomic characterization of hepatocellular carcinoma
A Ally, M Balasundaram, R Carlsen, E Chuah, A Clarke… - Cell, 2017 - cell.com
Liver cancer has the second highest worldwide cancer mortality rate and has limited
therapeutic options. We analyzed 363 hepatocellular carcinoma (HCC) cases by whole …
therapeutic options. We analyzed 363 hepatocellular carcinoma (HCC) cases by whole …
Integrated genomic characterization of pancreatic ductal adenocarcinoma
We performed integrated genomic, transcriptomic, and proteomic profiling of 150 pancreatic
ductal adenocarcinoma (PDAC) specimens, including samples with characteristic low …
ductal adenocarcinoma (PDAC) specimens, including samples with characteristic low …