Browse
Submit Data
Databases
API
Help

Dataset Information

357 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Proteomic analysis of gynecologic cancer tissue

ABSTRACT: Using iTRAQ technology, we performed shotgun proteomics of gynecological cancer tissues, which tumor cells were captured by laser microdissection to identify biomarker candidate proteins, for gynecological cancer.

INSTRUMENT(S): LTQ Orbitrap

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Ovary, Uterine Endometrium

DISEASE(S): Malignant Neoplasm Of Ovary

SUBMITTER: Satoshi Serada

LAB HEAD: Tetsuji Naka

PROVIDER: PXD001849 | Pride | 2016-04-27

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Publications

Similar protein expression profiles of ovarian and endometrial high-grade serous carcinomas.

Hiramatsu Kosuke K Yoshino Kiyoshi K Serada Satoshi S Yoshihara Kosuke K Hori Yumiko Y Fujimoto Minoru M Matsuzaki Shinya S Egawa-Takata Tomomi T Kobayashi Eiji E Ueda Yutaka Y Morii Eiichi E Enomoto Takayuki T Naka Tetsuji T Kimura Tadashi T

British journal of cancer 20160218 5

<h4>Background</h4>Ovarian and endometrial high-grade serous carcinomas (HGSCs) have similar clinical and pathological characteristics; however, exhaustive protein expression profiling of these cancers has yet to be reported.<h4>Methods</h4>We performed protein expression profiling on 14 cases of HGSCs (7 ovarian and 7 endometrial) and 18 endometrioid carcinomas (9 ovarian and 9 endometrial) using iTRAQ-based exhaustive and quantitative protein analysis.<h4>Results</h4>We identified 828 tumour-e ...[more]

PMID: 26889980

Similar Datasets

Membrane proteomic analysis of colorectal cancer tissue

Project description:We performed shotgun proteomics of colorectal cancer tissue and premalignant lesions using iTRAQ to identify biomarker candidate proteins for colorectal cancer.

2014-04-02 | PXD000851 | Pride

miRNA and consolidation of cued fear memory

Project description:miRNA profiling was carried out using the miRCURY LNA™ microRNA Array (6th gen - hsa, mmu & rno) miRNA were profiled in amygdala brain tissue obtained from adult mice 30 mins after auditory fear conditioning and expression levels compared to tissue obtained from Home cage controls Adult male mice were fear conditioned using tone-shock pairings and brains were harvested 30 mins later. The brains of Home Cage controls and Fear Conditioned animals (n = 4/group) were then punched to collect amygdala tissue. miRNA were extracted using the Qiagen miRNeasy Kit, and then shipped to Exiqon. Exiqon performed labeling, hybridization and data analysis after use of the miRCURY LNA™ microRNA Array (6th gen - hsa, mmu & rno). https://www.exiqon.com/ls/Documents/Scientific/miRCURY-LNA-microRNA-Array-6th-gen-hsa-mmu-rno-manual.pdf

2014-09-30 | E-GEOD-59072 | biostudies-arrayexpress

Classification of High-Grade Serous Ovarian Cancer Using Tumor Morphologic Characteristics

Project description:Despite the similar histologic appearances of high-grade serous ovarian cancers (HGSOCs), clinical observations point to marked differences in their gross appearances. Some patients have numerous small nodules, whereas others have bulkier disease; some patients have widespread disease, whereas others have more localized disease. However, a systematic framework for classifying such gross morphologic differences does not exist. The implementation of a laparoscopic triage algorithm for patients with advanced HGSOC enabled us to prospectively obtain detailed video images of HGSOC that could be analyzed to identify morphologic subtypes. In this study, we aimed to develop and characterize a gross morphologic classification system for HGSOC. Specifically, we assessed whether HGSOC can be reliably divided into distinct gross morphologic subtypes and whether such subtypes have different clinical outcomes and molecular features.

2023-01-27 | PXD031518 | Pride

Analyses of Human Brain Metastases of Breast Cancer Reveal the Association between HK2 Up-Regulation and Poor Prognosis

Project description:Analyses of Resected Human Brain Metastases of Breast Cancer Reveal the Association between Up-Regulation of Hexokinase 2 and Poor Prognosis. Brain metastases of breast cancer seem to be increasing in incidence as systemic therapy improves. Metastatic disease in the brain is associated with high morbidity and mortality. We present the first gene expression analysis of laser-captured epithelial cells from resected human brain metastases of breast cancer compared with unlinked primary breast tumors. The tumors were matched for histology, tumor-node-metastasis (TNM) stage, and hormone receptor status. Most differentially expressed genes were down-regulated in the brain metastases, which included, surprisingly, many genes associated with metastasis. Quantitative real-time PCR analysis confirmed statistically significant differences or strong trends in the expression of six genes: BMP1, PEDF, LAMγ3, SIAH, STHMN3, and TSPD2. Hexokinase 2 (HK2) was also of interest because of its increased expression in brain metastases. HK2 is important in glucose metabolism and apoptosis. In agreement with our microarray results, HK2 levels (both mRNA and protein) were elevated in a brain metastatic derivative (231-BR) of the human breast carcinoma cell line MDA-MB-231 relative to the parental cell line (231-P) in vitro. Knockdown of HK2 expression in 231-BR cells using short hairpin RNA reduced cell proliferation when cultures were maintained in glucose-limiting conditions. Finally, HK2 expression was analyzed in a cohort of 123 resected brain metastases of breast cancer. High HK2 expression was significantly associated with poor patient survival after craniotomy (P = 0.028). The data suggest that HK2 overexpression is associated with metastasis to the brain in breast cancer and it may be a therapeutic target. Common reference design, disease state design.

2010-01-21 | E-GEOD-20016 | biostudies-arrayexpress

Cells Comprising the Prostate Cancer Microenvironment Lack Recurrent Clonal Somatic Genomic Aberrations

Project description:Prostate cancer-associated stroma (CAS) plays an active role in malignant transformation, tumor progression, and metastasis. Molecular analyses of CAS have demonstrated significant changes in gene expression; however, conflicting evidence exists on whether genomic alterations in benign cells comprising the tumor microenvironment (TME) underlie gene expression changes and oncogenic phenotypes. This study evaluates the nuclear and mitochondrial DNA integrity of prostate carcinoma cells, CAS, matched benign epithelium and benign epithelium-associated stroma by whole genome copy number analyses, targeted sequencing of TP53, and fluorescence in situ hybridization. Comparative genomic hybridization (aCGH) of CAS revealed a copy-neutral diploid genome with only rare and small somatic copy number aberrations (SCNAs). In contrast, several expected recurrent SCNAs were evident in the adjacent prostate carcinoma cells, including gains at 3q, 7p, and 8q, and losses at 8p and 10q. No somatic TP53 mutations were observed in CAS. Mitochondrial DNA (mtDNA) extracted from carcinoma cells and stroma identified 23 somatic mtDNA mutations in neoplastic epithelial cells but only one mutation in stroma. Finally, genomic analyses identified no SCNAs, no loss of heterozygosity (LOH) or copy-neutral LOH in cultured cancer-associated fibroblasts (CAFs), which are known to promote prostate cancer progression in vivo. Agilent whole human genome aCGH oligonucleotide microarrays were used to assess copy number aberrations in 79 specimens from 20 patients as well as two pairs of cancer-associated fibroblasts (CAF) and benign/normal associated fibroblasts (NAF). 3 CAF/NAF sample pairs were also assessed for DNA copy number aberrations and copy-neutral LOH using the Infinium HumanOmniExpressExome BeadChip Kit.

2016-02-12 | E-GEOD-76456 | biostudies-arrayexpress

Drosophila melanogaster LC-MSMS

Project description:we performed proteome sequencing in Drosophila at day 7 (young) and day 42 (old) under dietary restriction (DR)and ad libitum (AL) conditions.

2021-09-09 | PXD021022 | Pride

Identification of MRCKA as an integral component of ovarian cancer signaling and a therapeutic target

Project description:High-grade serous ovarian carcinoma (HGSOC) is the most lethal gynecological cancer with few effective targeted therapies. HGSOC tumors exhibit genomic instability with frequent alterations in the protein kinome; however, only a small fraction of the kinome has been therapeutically targeted in HGSOC. Using multiplexed inhibitor beads and mass spectrometry (MIB-MS), we mapped the kinome landscape of HGSOC patient tumors and tumors isolated from HGSOC patient-derived xenograft (PDX) models. Kinome profiling of HGSOC tumors uncovered a prevalent MIB-MS kinome signature consisting of established HGSOC driver kinases, as well as several kinases previously unexplored in HGSOC. Loss-of-function analysis targeting the tumor kinome signature in HGSOC cells nominated CDC42BPA (also known as MRCKA) as a putative therapeutic target. Characterization of MRCKA knockdown in established HGSOC cell lines demonstrated MRCKA was integral to signaling that regulated the cell cycle checkpoint and focal adhesion/ actin remodeling, and depletion of MRCKA impaired cell migration, proliferation and survival. Moreover, small molecule inhibition of MRCKA using BDP9066 inhibited cell growth and induced apoptosis in HGSOC cells, as well as blocked spheroid formation, supporting MRCKA as a novel therapeutic target for the treatment of HGSOC.

2020-02-19 | PXD015849 | Pride

Identification of MRCKA as an integral component of ovarian cancer signaling and a therapeutic target

2020-02-19 | PXD015783 | Pride

Freshwater benthic cyanobacterial biofilm LC-MSMS

Project description:In order to understand how Phormidium mats establish, and the role of associated taxa in their development, we collected biofilms over a 19-day growth period during a nitrate-induced bloom event in the Wai-iti River for proteogenomics analysis. At the onset of a late summer bloom, cobbles from the Wai-iti River (Nelson, New Zealand) were removed, cleared of incipient growth with sterile sponges, and placed back into the river. Clearing was gentle as seeding from the pre-existing rock surface is important for bloom establishment [24]. Five pre-cleared cobbles were collected at each of 3 time points to capture the first 3, 6 and 9 days of growth (Table S1). Additional cobbles that contemporaneously developed biofilms were collected at days 12 and 19.

2020-05-19 | PXD015625 | Pride

Transcription profiling of node positive and negative human cervical tumor

Project description:Microarray experiments were performed to identify genes that were differentially expressed between node positive and negative cervical tumors

2006-10-23 | E-TABM-146 | 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