Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Proteomics data of colorectal cancer

ABSTRACT: Paired tumor and distant normal tissues from a cohort of 104 colon cancer patients were collected at West China Hospital and snap-frozen in liquid nitrogen. The informed consent forms were signed by the participants or their family members.

ORGANISM(S): Homo Sapiens

SUBMITTER: Lunzhi Dai

PROVIDER: PXD039360 | iProX | Wed Jan 11 00:00:00 GMT 2023

REPOSITORIES: iProX

ACCESS DATA

Json Xml

Publications

Age-, sex- and proximal-distal-resolved multi-omics identifies regulators of intestinal aging in non-human primates.

Wang Xinyuan X Luo Yaru Y He Siyu S Lu Ying Y Gong Yanqiu Y Gao Li L Mao Shengqiang S Liu Xiaohui X Jiang Na N Pu Qianlun Q Du Dan D Shu Yang Y Hai Shan S Li Shuangqing S Chen Hai-Ning HN Zhao Yi Y Xie Dan D Qi Shiqian S Lei Peng P Hu Hongbo H Xu Heng H Zhou Zong-Guang ZG Dong Biao B Zhang Huiyuan H Zhang Yan Y Dai Lunzhi L

Nature aging 20240206 3

The incidence of intestinal diseases increases with age, yet the mechanisms governing gut aging and its link to diseases, such as colorectal cancer (CRC), remain elusive. In this study, while considering age, sex and proximal-distal variations, we used a multi-omics approach in non-human primates (Macaca fascicularis) to shed light on the heterogeneity of intestinal aging and identify potential regulators of gut aging. We explored the roles of several regulators, including those from tryptophan ...[more]

PMID: 38321225

Similar Datasets

The protein disulfide isomerase AGR2 is essential for the production of intestinal mucus

Project description:Protein disulfide isomerases (PDIs) aid protein folding and assembly by catalyzing formation and shuffling of cysteine disulfide bonds in the endoplasmic reticulum (ER). Many members of the PDI family are expressed in mammals but the roles of specific PDIs in vivo are poorly understood. A recent homology-based search for additional PDI family members identified anterior gradient homolog 2 (AGR2), a protein originally presumed to be secreted by intestinal epithelial cells, but the function of AGR2 has been obscure. Here we show that AGR2 is expressed in the ER of secretory cells and is essential for in vivo production of intestinal mucin, a large cysteine-rich glycoprotein that forms the protective mucus gel lining the intestine. A cysteine residue within the AGR2 thioredoxin-like domain forms mixed disulfide bonds with MUC2, consistent with a direct role for AGR2 in mucin processing. Despite a complete absence of intestinal mucin, mice lacking AGR2 appeared healthy but were highly susceptible to dextran sodium sulfate-induced experimental colitis, indicating a critical role for AGR2 in protection from environmental insults. We conclude that AGR2 is a unique member of the PDI family that has a specialized and non-redundant role in intestinal mucus production. Keywords: small intestine and colon gene expression profiles for Agr2-/- and littermate control mice DNA miocroarrays were used to analyze small intenstine and colon mRNA expression of AGR2 KO and littermate control mice. The experiment incorporated a 1 color design and used Agilent arrays that contained roughly 44,00 60mer probes that provide complete coverage of the mouse genome. 12 arrays were hybridized and represent 8 small intestine samples ( 4 each KO and WT) and 4 colon samples (2 each KO and WT)

2010-05-19 | E-GEOD-12503 | biostudies-arrayexpress

Molecular classifiers for follicular adenomas

Project description:Patients were recruited at the Hospital do Cancer AC Camargo (São Paulo/Brazil), Instituto de Enfermedades Neoplasicas - INEN (Lima, Peru), Hospital Araujo Jorge (Goiania, Brazil) and Hospital Heliopolis (São Paulo, Brazil).All patients signed a pre-informed consent and the study was approved by the internal ethics committee. Tissue samples were snap frozen in liquid nitrogen . Before RNA extraction histopathological diagnosis was re-confirmed, all samples were micro-dissected and only tissues with at least 70% of tumor cells and no visible infiltrating inflammatory cells were used as tumor. Morphologically disease-free tissue obtained from surgical margins was considered as normal. A total of 38 samples were analyzed: 8 normal tissues, 10 goiters, 10 adenomas and 10 papillary carcinomas. Keywords: other

2005-05-09 | GSE2468 | GEO

Gene expression of breast cancer tissue in a large population-based cohort of Swedish patients

Project description:Tissue material was collected from all breast cancer patients receiving surgery at Karolinska Hospital from 1994-1996. Material was frozen immediatley on dry ice or in liquid nitrogen and stored in -70°C freezers. This series contains expression data for n=159 tumors from which RNA could be collected in sufficient amounts and quality for analysis. Keywords: breast cancer, expression profiling, predictive gene signature, molecular classification of cancecr

2006-05-31 | GSE1456 | GEO

A Ten-microRNA signature identified from a genome-wide microRNA expression profiling in human epithelial ovarian cancer

Project description:Human Ovarian tissue samples including 15 normal tissue samples and 48 malignant ovarian tissue were collected at Zhongshan Hospital of Fudan University. All tissue samples were immediately frozen in liquid nitrogen after being removed from body and stored at -80°C. Biovue's Sharpvue miRNA qPCR array panels (A-E) including 1721 unique assays were used to quantitate genome-wide miRNA gene expression from the collected ovarian tissue samples.

2014-12-31 | GSE53829 | GEO

The protein disulfide isomerase AGR2 is essential for the production of intestinal mucus

2009-05-15 | GSE12503 | GEO

MicroRNAs altered in colon adenomas

Project description:95 microRNA probes were found to have altered expression in colon adenomas compared to paired non-adenoma tissue Total mRNA was extracted from colon tissue that was flash frozen immediately after surgery. A total of 36 tissues were used for microarray analysis. Briefly, 5 ug of RNA were biotin labeled and hybridized to OSU-CCC microRNA microarrays version 4.0. We then analyzed associations comparing colon adenomas with paired non-adenoma tissue.

2012-07-31 | E-GEOD-29915 | biostudies-arrayexpress

MesoHET (Multi-site tumor sampling highlights molecular intra-tumor heterogeneity in malignant pleural mesothelioma)

Project description:To analyze intra-tumor heterogeneity, DNA methylation was analysed in paired tumor samples of 16 patients from whom biopsies were taken at distinct anatomical sites. Samples were collected from 2014 to 2017 in two French hospitals. All samples obtained from surgical samples or tumor biopsy were immediately frozen in liquid nitrogen and stored at -80°C prior extraction.

2021-06-08 | GSE175769 | GEO

Association of microRNAs with colon tumor metastases

Project description:We compared the expression of microRNAs in primary colon tumors with their paired liver metastases using the Nanostring human microRNA assays version 1 23 microRNAs were found to be differentially expressed between colon primary tumors and their paired metastases Total mRNA was extracted from flash frozen primary colon tumors and paired metastases. 18 tissues from 9 donors were used for this study. 100 ng of RNA was hybridized to Nanostring Human 0microRNA assays version 1.0. Data was normalized according to manufacterer's recommendation. This included background substraction and normalizing to the geometric mean of the highest 75 microRNAs.

2014-08-01 | E-GEOD-44121 | biostudies-arrayexpress

different expression of RNAs between breast cancer and benign tissue

Project description:To find differentially expressed RNAs between breast cancer and benign tissue, we have conducted whole genome microarray expression profiling as a discovery platform to identify genes that play a key role in the breast cancer progression. Primary cancer tissues and paired adjacent noncancerous tissues were snap-frozen in liquid nitrogen immediately after resection and were used to perform genome expression analysis.

2018-04-10 | GSE112848 | GEO

Gene expression profile analysis of non small cell lung cancer in North East India

Project description:The objective of this study was to identify the genes differentially expressed in non small cell lung carcinoma associated with prevalent risk factor such as smoking and betel quid chewing in high-risk north eastern Indian population. The tumor biopsies and matched normal tissue from distant site were collected in RNA later, snap-frozen in liquid nitrogen and stored at -70°C until processed. Data of clinicopathologic parameters were obtained from patients’ clinical and pathologic report. Institutional human ethics committee approved the study.

2012-01-31 | GSE30118 | GEO

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