Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

E-GEOD-46513

ABSTRACT: RNA-sequencing analysis of 5' capped RNAs identifies novel differentially expressed genes in sessile serrated colon polyps (SSPs)

OTHER RELATED OMICS DATASETS IN: PRJNA200709

DISEASE(S): Control,Colon Sessile Serrated Adenoma/polyp

PROVIDER: E-GEOD-46513 | ExpressionAtlas | 2019-05-14

REPOSITORIES: ExpressionAtlas

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	E-GEOD-46513-analysis-methods.tsv	Tabular
	E-GEOD-46513-analytics.tsv	Tabular
	E-GEOD-46513-analytics.tsv.undecorated	Tabular
	E-GEOD-46513-analytics.tsv.undecorated.unrounded	Tabular
	E-GEOD-46513-analytics.tsv.unrounded	Tabular

Items per page:

1 - 5 of 33

Similar Datasets

Homo sapiens

Project description:RNA-sequencing analysis of 5' capped RNAs identifies novel differentially expressed genes in sessile serrated colon polyps (SSPs)

| PRJNA200709 | ENA

Identification of the molecular basis of anti-cancer effect of Huaier.

Project description:Intervention type:DRUG. Intervention1:Huaier, Dose form:GRANULES, Route of administration:ORAL, intended dose regimen:20 to 60/day by either bulk or split for 3 months to extended term if necessary. Control intervention1:None. Primary outcome(s): For mRNA libraries, focus on mRNA studies. Data analysis includes sequencing data processing and basic sequencing data quality control, prediction of new transcripts, differential expression analysis of genes. Gene Ontology (GO) and the KEGG pathway database are used for annotation and enrichment analysis of up-regulated genes and down-regulated genes. For small RNA libraries, data analysis includes sequencing data process and sequencing data process QC, small RNA distribution across the genome, rRNA, tRNA, alignment with snRNA and snoRNA, construction of known miRNA expression pattern, prediction New miRNA and Study of their secondary structure Based on the expression pattern of miRNA, we perform not only GO / KEGG annotation and enrichment, but also different expression analysis.. Timepoint:RNA sequencing of 240 blood samples of 80 cases and its analysis, scheduled from June 30, 2022..

| 2612481 | ecrin-mdr-crc

University of Washington CSF biomarker study for Parkinson disease

Project description:<p>There is a clear need to develop biomarkers for Parkinson disease (PD) diagnosis and monitoring disease progression. In this study we evaluated cerebrospinal fluid (CSF) proteins, which are known to be critically involved in PD or identified in our preliminary profiling studies, aptamers, and RNAs as potential PD biomarkers. Access to subjects for this study was via the Pacific Northwest Udall Center (PANUC) and the Alzheimer's Disease Research Center (ADRC) at the University of Washington and Oregon Health and Sciences University (OHSU). Using CSF samples from 30 well-characterized patients with PD and 30 age-, sex-matched healthy controls, we prepared RNA seq libraries and performed deep sequencing of all RNA species, including small and long RNA, mRNAs, noncoding RNAs and differentially spliced transcripts. We then tried several methods for RNAseq data analysis to optimize our analysis pipeline. We identified a total of 3381 transcripts corresponding to 182 long intergenic RNAs (LincRNAs), 11 microRNAs (miRNAs), 2861 protein-coding transcripts, 200 pseudogenes and 127 antisense RNAs; some of them were differentially expressed between PD and control groups. Selected differentially expressed RNAs have been validated in the same set of CSF samples using real-time PCR (RT-PCR). Further validations in independent, larger cohorts of samples are still ongoing. Our results obtained so far suggested that CSF proteins and RNAs could be used as good indexes for PD diagnosis and disease severity/progression. This study is a part of the NIDDS-funded Parkinson's Disease Biomarkers Program (PDBP).</p>

| phs000901 | dbGaP

RNA-seq analysis identifies differentially expressed genes regulated by LPS exposure on HNEpC cells

Project description:RNA-seq analysis identifies differentially expressed genes regulated by LPS exposure on HNEpC cells

| PRJNA1008682 | ENA

RNA-seq analysis identifies differentially expressed genes regulated by PM2.5 exposure on HNEpC cells

Project description:RNA-seq analysis identifies differentially expressed genes regulated by PM2.5 exposure on HNEpC cells

| PRJNA909163 | ENA

RNA-seq analysis identifies differentially expressed genes regulated by acidification exposure on HNEpC cells

Project description:RNA-seq analysis identifies differentially expressed genes regulated by acidification exposure on HNEpC cells

| PRJNA1015545 | ENA

Homo sapiens

Project description:Identification of differentially expressed small RNAs of colon cancer stem cells.

| PRJNA188068 | ENA

RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes during human erythroipoiesis

Project description:RNA Sequencing Facilitates Quantitative Analysis of differentially expressed genes during human erythroipoiesis

| PRJNA488730 | ENA

High throughput RNA-sequencing identifies Differentially Expressed Genes (DGS) of control and shATXN7L3 HCCLM3 cells

Project description:High throughput RNA-sequencing identifies Differentially Expressed Genes (DGS) of control and shATXN7L3 HCCLM3 cells

| PRJNA660153 | ENA

Identification of the molecular basis of anti-cancer effect of Huaier.

Project description:Intervention type:DRUG Name of intervention:Huaier Dose form / Japanese Medical Device Nomenclature:GRANULES Route of administration / Site of application:ORAL Dose per administration:20? g Dosing frequency / Frequency of use:OTHER, SPECIFY 20g? per day Planned duration of intervention:3 months to extending if necessary Intended dose regimen:20 to 60/day by either bulk or split for 3 months to extended term if necessary detailes of teratment arms:hepatocellular carcinoma, breast cancer, colorectal cancer and related gastrointestinal cancers, urologic cancers including prostate cancer, pancreas cancer, and lung cancer, etc. Comparative intervention name:None Dose form / Japanese Medical Device Nomenclature: Route of administration / Site of application: Dose per administration: Dosing frequency / Frequency of use: Planned duration of intervention: Intended dose regimen: Primary outcome(s): For mRNA libraries, focus on mRNA studies. Data analysis includes sequencing data processing and basic sequencing data quality control, prediction of new transcripts, differential expression analysis of genes. Gene Ontology (GO) and the KEGG pathway database are used for annotation and enrichment analysis of up-regulated genes and down-regulated genes. For small RNA libraries, data analysis includes sequencing data process and sequencing data process QC, small RNA distribution across the genome, rRNA, tRNA, alignment with snRNA and snoRNA, construction of known miRNA expression pattern, prediction New miRNA and Study of their secondary structure Based on the expression pattern of miRNA, we perform not only GO / KEGG annotation and enrichment, but also different expression analysis. Study Design: Comparative test, None, No, open(masking not used), EXPLORATORY

| 98681 | ecrin-mdr-crc

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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