Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

CUREfast: Accelerating research with families

ABSTRACT: RNA sequencing of tissue samples taken from pediatric cancer patients of varying disease type. Patients represented those with terminal disease with samples taken from resection or autopsy.

ORGANISM(S): Homo sapiens

PROVIDER: GSE100427 | GEO | 2017/06/24

SECONDARY ACCESSION(S): PRJNA391716

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Whole-genome gene expression profiles of non-tumorous human lung tissues: UBC set

Project description:We profiled genome-wide gene expression in non-tumorous human lung tissues. The overall goal of this project is to improve our molecular understanding of various lung diseases including lung cancer and chronic obstructive pulmonary disease (COPD). The samples from the University of British Columbia (UBC) were derived from a long-standing tissue bank started by Drs. James C. Hogg and Peter D. Paré (Ding L, Quinlan KB, Elliott WM, Hamodat M, Paré PD, Hogg JC, Hayashi S. A Lung Tissue Bank for Gene Expression Studies in Chronic Obstructive Pulmonary Disease. COPD: Journal of Chronic Obstructive Pulmonary Disease 2004;1:191-204 (PMID 17136987)). Lung specimens were obtained from patients undergoing lung surgery. Primarily this was for resection of benign or malignant lesions. Some were the diseased lungs from transplant recipients. Patients are approached prior to surgery and asked if they would like to donate a portion of the lung tissue that is to be removed for research. It is explained that this would be done after the appropriate diagnostic specimens are taken and that only portions of lung that would be otherwise discarded will be used for research. A small number of lung samples were obtained at the time of autopsy. Immediately after resection, the lobes or lungs were inflated using a 50% mixture of Cryomatrix and saline. The specimens were then frozen in liquid nitrogen fumes and stored at -80C for later RNA extraction. RNAs were extracted and then hybridized to a single custom-made whole-genome human Affymetrix array.

2012-06-10 | E-GEOD-23529 | biostudies-arrayexpress

Polyomic analyses of dopaminergic neurons isolated from human substantia nigra in Parkinson’s disease: An exploratory study.

Project description:In this exploratory study, we used laser microdissection to extract dopaminergic neurons from 10 human SNpc samples obtained at autopsy in Parkinson’s disease patients and control subjects. Extracted RNA and proteins were identified by RNA sequencing and nano-LC-MS/MS, respectively, and the differential expression between Parkinson’s disease and control group was assessed.

2021-06-30 | GSE169755 | GEO

Multi-omic analysis of homologous recombination deficient, end-stage ovarian cancer [Methylation]

Project description:High grade serous ovarian cancer (HGSC) is frequently characterized by homologous recombination (HR) DNA repair deficiency, and while most such tumors are sensitive to initial treatment, acquired resistance is common. We undertook a multi-omics approach to interrogate the molecular diversity in end-stage disease, using multiple autopsy samples collected from 15 women with HR-deficient HGSC. Patients had polyclonal disease, and several resistance mechanisms were identified within most patients, including reversion mutations and HR restoration by other means. We also observed frequent whole genome duplication, and global changes in immune composition with evidence of immune escape. This analysis highlights diverse evolutionary changes within HGSC that conspire to evade therapy and ultimately overwhelm individual patients. Methylation profiling was done on 29 end stage high grade serous ovarian cancer samples. 38 primary tumours, 6 autopsy tumours and 7 fallopian tube normals from GSE65820 were also used as part of the cohort.

2022-11-12 | GSE217673 | GEO

A functional genomics predictive network model identifies regulators of inflammatory bowel disease: Mount Sinai Hospital (MSH) Population Specimen Collection and Profiling of Inflammatory Bowel Disease

Project description:This study focuses on inflammatory bowel disease gene expression profiling. Surgical specimens from 134 patients undergoing bowel resection for inflammatory bowel disease (IBD) and non IBD controls at Mount Sinai Medical Center were collected as the source of tissue. Control samples (CLs) were harvested from normal non inflamed bowel located more than 10 cm away from the tumor from patients undergoing bowel resection for sporadic colon cancer. Ulcerative colitis (UC) and Crohn’s (CD) patient samples were all isolated from areas containing moderate to severe inflammation. The diagnostic pathology report for each specimen was provided by the Mount Sinai Hospital Pathology Department. Patients with UC and patients with CD shared common medications including corticosteroids, infliximab, azathioprine, and mesalamine.

2017-07-07 | GSE83687 | GEO

Late endosomes,lysosomes isolated from frozen autopsy human brains age matched controls, Niemann Pick type C and juvenile CLN3 disease.

Project description:An immunopurification strategy was used to isolate intact LE, Lys from frozen human autopsy brain samples. LE, Lys isolated from BA9 samples of JNCL patients were compared with age matched unaffected controls and Niemann Pick Type C (NPC) disease patients. The protein content of LE, Lys was analyzed using shotgun proteomics.

2023-03-07 | MSV000091428 | MassIVE

COVID_19 lung autopsy samples

Project description:COVID_19 lung autopsy samples

| PRJNA839754 | ENA

Differential expression in the cortex and white matter of patients with cerebral small vessel disease (SVD)

Project description:In this study, we performed the first genome-wide expression profiling of post-mortem brains of a cohort of patients deceased from SVD and compared them to age-matched normal controls. Normal-appearing frontal temporal and occipital cortical and subcortical brain samples were dissected at autopsy from 5 patients diagnosed with pure SVD and 5 control patients without neurological disease and immediately frozen.

2015-03-11 | E-MTAB-3408 | biostudies-arrayexpress

Expression data from 20 human colon cancer

Project description:We obtained snap-frozen tissue samples from 20 colorectal cancer (CRC) patients with stage III disease who had undergone curative resection. The expression profiles were determined using Affymetrix Human Genome U133Plus 2.0 arrays. We used microarrays to identify potential gene deregulation correlated with the outcomes of colon cancer patients.

2014-08-26 | GSE60697 | GEO

Expression data from Rheumatoid Arthritis synovial tissue samples

Project description:Rheumatoid arthritis (RA) is a complex and clinically heterogeneous autoimmune disease. Microarray analysis of 83 synovial samples provides insight into the expression-level differences between patients at the site of disease activity. Synovial samples from Rheumatoid Arthritis patients were obtained during joint resection and profiled using microarrays.

2014-04-22 | E-GEOD-48780 | biostudies-arrayexpress

Single-cell ATAC-Seq of Adult GBM surgical specimens

Project description:We performed scATAC-seq on primary glioblastoma tissue samples taken at time of initial resection to map the global chromatin profiles of glioblastoma cells and associated non-neoplastic cells

2021-01-27 | GSE139136 | GEO

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