Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome wide transcriptome analysis of patient matched prostate cancer using NGS technology

ABSTRACT: Genome wide transcriptome analysis of patient matched prostate cancer using NGS technology

PROVIDER: PRJNA552058 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Genome wide transcriptome analysis of patient matched prostate cancer using NGS technology

Project description:Purpose: The goal of present study is to compare transcript level changes between normal and tumor of same individual Methods: Total RNA was isolated, strand specific RNA seq was performed after Ribosomal RNA removal, global transcript profiles were generated by deep sequencing, in duplicate, using Illumina Hiseq. Initial quality check was performed using FASTQC, Alignment was performed using Hisat2 against human hg19 genome. Raw read count was performed using SummarizedExperiment (R package). Differential analysis was done using DEseq2 Results: This study provides insights in terms of global trancriptome changes between normal and tumor of same patient. Conclusions: This study provides in depth analysis of transcriptomoc data in patient specific manner.

2019-07-02 | GSE133626 | GEO

Preanalytic Impacts on Genomic Sequencing by NGS technology

Project description:Preanalytic Impacts on Genomic Sequencing by NGS technology

| PRJNA477669 | ENA

Generation of matched patient-derived xenograft in vitro-in vivo models using 3D macroporous hydrogels for the study of liver cancer [WES]

Project description:Whole exome sequencing of matched patient-derived xenograft in vitro-in vivo models.

2018-01-31 | GSE109954 | GEO

Symbiotic Transcriptome profiling of candidate genes in model legume Arachis hypogaea using Next Generation Sequencing Technology (NGS)

Project description:The Goal of this study is to develop NGS derived Arachis hypogaea root-nodule symbiotic Transcriptome Profile (RNAseq).

2018-08-29 | GSE98997 | GEO

Generation of matched patient-derived xenograft in vitro-in vivo models using 3D macroporous hydrogels for the study of liver cancer [RNA-seq]

Project description:Transcriptome levels of matched patient-derived xenograft (PDX) in vitro-in vivo models.

2018-01-31 | GSE109903 | GEO

Gene expression profiles with matched NGS in B-cell non-Hodgkin lymphoma

Project description:Gene expression profiles with matched NGS in B-cell non-Hodgkin lymphoma

| PRJNA549483 | ENA

Gene expression changes in patient-matched gastric normal mucosa, adenomas, and carcinomas

Project description:sequential changes in gene expression profiles in the gastric adenoma-carcinoma sequence by analyzing eight patient-matched gastric normal mucosa, adenomas and carcinomas.

2010-09-28 | GSE24375 | GEO

Gene expression in human oral mucosal fibroblasts and patient-matched skin fibroblasts

2011-01-01 | GSE21648 | GEO

Transcriptomic profiling of a glioblastoma multiforme patient with matched control brain tissue

Project description:To investigate differential gene expression, we analyzed the entire transcriptomes of tumor and matched normal brain tissues obtained from a patient who had glioblastoma multiforme. We extracted and sequenced the mRNA using Illumina GA2 platform. The raw data was analyzed using our recently developed program called RNASEQR, as well as ERANGE, MapSplice, SpliceMap, and TopHat. Tumor and matched control brain tissues were obtained from a Han-Chinese patient.

2011-10-30 | E-GEOD-33328 | biostudies-arrayexpress

Gene expression in human oral mucosal fibroblasts and patient-matched skin fibroblasts

Project description:Wound healing within the oral mucosa results in minimal scar formation compared to wounds within the skin. We have recently demonstrated distinct differences in the ageing profiles of cells (oral mucosal and patient-matched skin fibroblasts) isolated from these tissues. We hypothesize that the increased replicative potential of oral mucosal fibroblasts may confer upon them preferential wound healing capacities. Passage-matched early cultures of oral mucosal fibroblasts and skin fibroblasts demonstrated distinct gene expression profiles with a number of genes linked to wound healing/tissue repair. We analyzed the gene expression profiles of oral mucosal and patient-matched skin fibroblasts for multiple patients both prior to (0h) and (6h) following a wounding stimulus. Differences in the gene expression profiles of oral mucosal and patient-matched skin fibroblasts were anlazyed for multiple patients both prior to (0h) and (6h) following a wounding stimulus. Serum starvation and subsequent stimulation provides a model for wounding and RNA extracted at 0h and 6h following this stimulus was hybridized to Affymetrix microarrays for analysis. We sought to compare the expression profiles both between oral and normal fibroblasts, in both serum depleted and stimulated conditions and also compare differences between patients.

2011-01-01 | E-GEOD-21648 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data