Pan cancer
The cancer genome atlas pan-cancer analysis project.pdf
... The power of cross-tumor analysis will increase as technologies for monitoring indi- vidual tumor cells at high resolution come into play. Now that the price of genome sequenc- ing has fallen, the next ...
8
Detection of large rearrangements in a hereditary pan-cancer panel using next-generation sequencing
... The hereditary pan-cancer panel test used in this analysis has been analytically validated and described in detail previ- ously [9]. Panel genes included APC, ATM, BARD1, BMPR1A, BRCA1, BRCA2, BRIP1, CDH1, ...
9
BioXpress: an integrated RNA-seq-derived gene expression database for pan-cancer analysis.
... multiple cancer types, known as one type of pan-cancer analysis, is widely conducted by the community, especially by TCGA Research Network (47, 48), and is of great interest from the aspect of ...
15
HER2 is not a cancer subtype but rather a pan cancer event and is highly enriched in AR driven breast tumors
... core pan-cancer HER2 amplicon (6) and broad amplicon (19) ...breast cancer (Additional file 4D) show consistent increased expression in HER2A tumors, regardless of can- cer ( p = ...ovarian ...
16
Integrative DNA methylome analysis of pan-cancer biomarkers in cancer discordant monozygotic twin-pairs
... identify pan-cancer DMPs that could serve as bio- markers for early diagnosis, we performed analyses taking into account the time of cancer ...official cancer diagnosis, in a 0–5-year period ...
16
Pan-cancer EMT-signature identifies RBM47 down-regulation during colorectal cancer progression
... novel pan-cancer EMT-associated gene expression signature consisting of 16 epithelial and 4 mesenchymal state-associated ...colorectal cancer (CRC) ...
15
Amphicrine carcinoma of the stomach and intestine: a clinicopathologic and pan-cancer transcriptome analysis of a distinct entity
... performed pan-cancer tran- scriptome analyses in 12 patients, including patients with amphicrine cancer, adenocarcinoma and ...the pan-cancer panel reflected the similar- ity between ...
13
An Integrated Pan-Cancer Analysis and Structure-Based Virtual Screening of GPR15
... inhibiting cancer cell ...a pan- cancer ...the Cancer Genome Atlas (TCGA) and the Genotype-Tissue Expression (GTEx) databases, we found that GPR15 expression is significantly lower in colon ...
27
Pan-cancer analysis of the extent and consequences of intratumor heterogeneity
... a pan-cancer Cox model, except for gliomas, as the staging system is not applicable to ...analyzed cancer types, where the highest hazard was associated with an intermediate number of clones (between ...
18
Associating somatic mutations to clinical outcomes: a pan-cancer study of survival time
... filtered out during somatic mutation calling. Assumption (3) is referred to as the infinite site assumption [23, 24], which is reasonable because the number of mutated loci is very small relative to the size of the ...
15
Pan-cancer classifications of tumor histological images using deep learning
... a pan-cancer study of tumor image data, systematically analyzing 27815 whole-slide hematoxylin and eosin (H&E) images from 23 TCGA ...one cancer type to classify images from another cancer ...
25
Pan-Cancer Landscape of Aberrant DNA Methylation across Human Tumors.
... lower expression when copy number losses were accompanied by promoter hyper-methylation (Figures S4A and S4B). Similarly, we found synergistic CTNNB1 upregulation in cervical carci- nomas with concurrent promoter ...
24
Genomic alterations underlie a pan cancer metabolic shift associated with tumour hypoxia
... of cancer cells and identify potential drivers of this hallmark, it is crucial to study genomic aberrations alongside transcriptional ...The Cancer Genome Atlas (TCGA), the International Cancer ...
17
Robust genomic copy number predictor of pan cancer metastasis
... a pan-cancer metastasis potential score (panMPS) based on observed ...prostate cancer, triple negative breast cancer and lung adenocarcinoma, and overall survival in the Metabric breast ...
12
ERR1 and PGC1α associated mitochondrial alterations correlate with pan cancer disparity in African Americans
... Our data suggest that tumors from African American patients predominantly express more mitochondria, ERR1, and PCG1α in multiple cancer types. These findings could form the biological basis of disparity in ...
7
Pan-cancer adaptive immune resistance as defined by the Tumor Inflammation Signature (TIS): results from The Cancer Genome Atlas (TCGA)
... The Tumor Inflammation Signature (TIS) is an investigational use only (IUO) 18-gene signature that measures a pre-existing but suppressed adaptive immune response within tumors. The TIS has been shown to enrich for ...
17
Homeobox oncogene activation by pan cancer DNA hypermethylation
... identify pan-cancer differentially methylated (BH corrected p value < ...resulting pan-cancer differential UMRs are thus unlikely to be artifacts due to the lack of matched normal tissues ...
12
Pan-cancer patterns of DNA methylation
... across cancer types (pan-cancer methylome analyses) has revealed distinct subgroups of tumors that share similar methylation ...from cancer genome profiling studies performed by large ...
18
A pan-cancer analysis of MYC-PVT1 reveals CNV-unmediated deregulation and poor prognosis in renal carcinoma
... The Cancer Genome Atlas (TCGA) to explore the relevance of MYC-PVT1 deregulation across several cancer ...Our pan-cancer analysis revealed that kidney renal clear cell carcinoma (KIRC) shows ...
9
Pan-cancer analysis of genomic scar signatures associated with homologous recombination deficiency suggests novel indications for existing cancer drugs
... Background: Ovarian and triple-negative breast cancers with BRCA1 or BRCA2 loss are highly sensitive to treatment with PARP inhibitors and platinum-based cytotoxic agents and show an accumulation of genomic scars in the ...
10