Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Human Breast Cancer Tumor Tissue Sample TMT Tagged Quantitative Proteome

ABSTRACT: In order to obtain the differential changes in protein expression in the comparison group, this project was carried out using TMT quantitative proteomics technology.

ORGANISM(S): Homo Sapiens

SUBMITTER: Xueyan Zhou

PROVIDER: PXD047637 | iProX | Thu Dec 07 00:00:00 GMT 2023

REPOSITORIES: iProX

ACCESS DATA

Json Xml

Similar Datasets

Proteomic profiles of FFPE breast normal and tumor tissue

Project description:Accessing the proteome of formalin fixed, paraffin-embedded (FFPE) tissue could lead to discovery of new biomarkers and development of clinically useful assays. A critical step to realizing this potential is developing a simple and reproducible method to obtain proteomic profiles from FFPE tissue. An objective of this work is to develop and optimize a method to obtain proteomic profiles from FFPE breast tissue using a protocol commonly applied in pathology laboratories. The outcome is a method that incorporates steps used for immunohistochemical analyses of FFPE tissue that results in highly reproducible proteomic profiles. Implementing this assay with normal breast tissue and breast tumor tissue produced proteome profiles that reproducibly demonstrate substantial differences between normal vs. tumor tissue.

2020-07-17 | PXD007088 | Pride

MicroRNA expression in normal and tumor breast tissues

Project description:microRNA expression signatures can differentiate normal and breast cancer tissues and can define specific clinico-pathological phenotypes in breast tumors. In order to further evaluate the microRNA expression profile in breast cancer, we analyzed the expression of 667 microRNAs in 29 tumors and 21 adjacent normal tissues using TaqMan Low-density arrays. 130 miRNAs showed significant differential expression (adjusted P value=0.05, Fold Change=2) in breast tumors compared to the normal adjacent tissue. Importantly, the role of 43 of these microRNAs has not been previously reported in breast cancer, including several evolutionary conserved microRNA*, showing similar expression rates to that of their corresponding leading strand. The procedure begins with the retro-transcription of 70ng of total RNA with stem-loop primers to obtain a cDNA template. A pre-amplification step was included in order to increase the concentration of the original material and to detect microRNAs that are expressed at low levels. The pre-amplified product was loaded into the TaqManM-BM-. Low Density Arrays and amplification signal detection was carried out using the 7900 FAST real time thermal cycler (ABI). A total of 29 tumor and 21 normal samples (two pools: one containing five samples, other containing 12 samples, plus 4 independent normal samples) were analyzed. 23 tumors and the two normal pools were processed by triplicate, representing 82% of the total samples.

2012-03-10 | E-GEOD-35412 | biostudies-arrayexpress

Expression Quantitative Trait loci (QTL) in tumor adjacent normal breast tissue and breast tumor tissue.

Project description: Not available

| S-EPMC5289428 | biostudies-literature

Cotton seed Protein and Phosphorylation project 20220331

Project description:In order to obtain the differential changes of protein expression in the comparison group, TMT quantitative proteomics technology was used in this project

2022-04-01 | PXD032890 |

TMT Sample Preparation for Proteomics Facility Submission and Subsequent Data Analysis.

Project description: Not available

| S-EPMC7442215 | biostudies-literature

Human Breast Tumor Cored Sample mRNA Array

Project description:An eight sample cohort of primary human breast cancer sample total RNA gene expression analysis. Illumina HumanRef-8 v2 11223162_B Total RNA was isolated from tumor cell dense regions of fresh frozen primary breast cancer samples.

2012-06-14 | E-GEOD-38708 | biostudies-arrayexpress

Human Breast Tumor Cored Sample mRNA Array

Project description:An eight sample cohort of primary human breast cancer sample total RNA gene expression analysis. Illumina HumanRef-8 v2 11223162_B

2012-06-15 | GSE38708 | GEO

Array comparative genomic hybridization of tumor tissue developed in TH-MYCN (hemizygote) mice [Agilent-015028]

Project description:In order to investigate the chromosomal alterations (gains or losses) of tumor tissuees developed in TH-MYCN mice, a neuroblastoma model, we carried out array comparative genomic hybridization. We investigated whether chromosomal alterations occured in the tumor tissues developed in the abdomen of TH-MYCN hemizygote mice.

2017-04-01 | GSE89739 | GEO

Epigenome analysis of tumor adjacent normal tissue from breast cancer patients

Project description:Genome wide DNA methylation profiling of tumor adjacent normal tissue from patients with invasive breast cancer, as well as tissue from women undergoing reduction mammoplasty or prophylactic surgery. The Illumina Infinium 450k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across approximately 485,577 CpGs in snap frozen breast tissue. Samples included 70 tumor-adjacent normal breast tissue with invasive disease, 8 tissues from breast prophylactic patients, and 18 tissues from breast reduction patients.

2015-04-15 | GSE67919 | GEO

TMT-based quantitative proteomic analysis of extracellular vesicles (EVs) released from brown/white adipose tissue following cold exposureTMT-based quantitative proteomic analysis of extracellular vesicles (EVs) released from brown/white adipose tissue following cold exposure

Project description:The proteome cargo of extracellular vesicles released from brown adipose tissue (BAT) and from white adipose tissue (WAT) of mice subjected to cold exposure (4°C) was analysed by a TMT-based quantitative proteomic procedure in order to obtain new information on the processes of thermogenesis.

2022-05-20 | PXD026080 | Pride

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