Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Exome sequencing of lemur hepatocellular carcinoma

ABSTRACT: Exome sequencing of lemurs with hepatocellular carcinoma

INSTRUMENT(S): -

ORGANISM(S): Lemur Catta

SUBMITTER: Duke Cancer Institute

PROVIDER: PRJEB51774 | EVA | 2022-03-21

REPOSITORIES: EVA

ACCESS DATA

Json Xml

Similar Datasets

Genomic landscape of carcinogen induced mouse skin squamous cell carcinoma: whole-exome sequencing

Project description:Whole-exome sequencing of induced murine squamous cell carcinoma. 26 samples are included.

2014-09-11 | E-MTAB-2887 | biostudies-arrayexpress

Whole exome sequencing of Lung Squamous Carcinoma Patients of Indian Origin

Project description:The study involves whole exome sequencing of 20 primary tumors obtained from lung squamous carcinoma patients of Indian origin. With this, we aim to describe the mutational profile of this specific subset of lung cancer patients. This knowledge will further allow us to gain an insight into potentially actionable genomic alterations prevalent in Indian lung squamous carcinoma.

2022-02-11 | E-MTAB-8801 | biostudies-arrayexpress

Whole exome sequencing of TSCC (tongue squamous cell carcinoma)

Project description:Of the multiple anatomical sites represented in oral cancer, squamous cell carcinoma of the tongue (TSCC) shows the highest incidence among younger age group. Chewing betel leaf, areca nut & slaked lime and smoking tobacco are common practises in India which have direct clinical implication in TSCC carcinogenesis. Here, for the first time we define the landscape of genomic alterations in TSCC from the Indian diaspora which would help to identify novel therapeutic targets for clinical intervention and define the genetic basis for TSCC. We performed high throughput sequencing of fifty four tongue samples using whole exome sequencing (n=47, 23 paired normal tumor and 1 unpaired) and transcriptome sequencing (n=17, 10 tumor and 5 normal). Mutation, copy number analysis were carried out using exome sequencing data and transcriptome analysis provided expressed genes and transcript fusions in tongue cancer patients. Further, integrated analysis were performed to identify biologically relevant alterations. Our preliminary analysis revealed presence of most frequently altered mutations in TSCC which includes mutations in TP53, NOTCH1, CDKN2A, USP6, KMT2D etc, consistent with literature. We observed high frequency of CG/T(GC/A) transversions in non-CpG islands, a signature associated with tobacco exposure. Somatic copy number analysis revealed copy number gain in known hallmarks such as CCND1, MYC, ORAOV1 genes along with copy number alteration in novel genes. Significant positive correlation was observed in the genes harbouring copy number gains and showing increased expression.

2018-05-31 | E-MTAB-4653 | biostudies-arrayexpress

Cervical Adenocarcinoma Whole Exome sequencing

Project description:Raw data of exome sequencing of 17 paired samples and 1 orphan tumor sample, total 18 samples

2022-02-12 | E-MTAB-9766 | biostudies-arrayexpress

Whole exome sequencing of Cervical Squamous samples

Project description:The raw data consist of whole exome sequencing data of cervical squamous samples

2022-02-11 | E-MTAB-11407 | biostudies-arrayexpress

Profiling of exome mutations associated with progression of HBV-related hepatocellular carcinoma

Project description:We profiled the mutations and gene expressions of early and advanced hepatocellular carcinoma (HCC) related with Hepatitis B-viral infection. Integrative analysis was performed with whole-exome sequencing and gene expression profiles of the 12 cases of early and advanced HCCs and paired non-tumoral adjacent liver tissues.

2014-10-19 | GSE62441 | GEO

Profiling of exome mutations associated with progression of HBV-related hepatocellular carcinoma

2014-10-19 | E-GEOD-62441 | biostudies-arrayexpress

Clinical exome sequencing of cells freshly isolated from 12 human colorectal carcinoma patients (tumor endothelial cells, normal colon endothelial cells, PBMCs, n=12 each) in comparison to microdisected tumor DNA (n=11) from corresponding FFPE-tissue blocks

Project description:Clinical exome sequencing of cells freshly isolated from 12 human colorectal carcinoma patients (tumor endothelial cells, normal colon endothelial cells, PBMCs, each n=12) in comparison to DNA isolated from microdissected tumor cells (n=11) from corresponding FFPE-tissue blocks

2023-05-01 | E-MTAB-10521 | biostudies-arrayexpress

Integrated whole-exome and transcriptome sequencing indicated dysregulation of cholesterol metabolism in eyelid sebaceous gland carcinoma

Project description:To identify the molecular background of eyelid sebaceous gland carcinomas (SCs), the integrated whole-exome sequencing and transcriptome sequencing for five eyelid SCs were conducted in this study.

2023-02-15 | GSE219205 | GEO

Exome sequencing in early gastric carcinoma

Project description:Exome sequencing identifies early gastric carcinoma as an early stage of advanced gastric cancer

| PRJEB4850 | ENA