Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comparison of rectal patient data separated by their event of developing distant metastasis [RNA-Seq]

ABSTRACT: The rectal cancer patient data set consists of 10 patients from a clinical study at the Surgery department of the University Medical Center Göttingen collected over a longer time. Patients were chosen based on the follow-up time and development of a distant metastasis. First a balanced sample size of five versus five patients with and without a metastatic event was chosen. This needed to be changed to six versus four. Two conditions of rectal cancer patient data separates by the event of distant metastasis: 1. good prognosis, no event (4 samples), 2. bad prognosis, event (6 samples) Single-end sequencing on a Illumina HiSeq 200 machine with the standard total_RNA protocol with 50 base pairs read length was used

ORGANISM(S): Homo sapiens

PROVIDER: GSE99897 | GEO | 2018/05/23

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Comparison of rectal patient data separated by their event of developing distant metastasis [Agilent]

Project description:The rectal cancer patient data set consists of 10 patients from a clinical study at the Surgery department of the University Medical Center Göttingen collected over a longer time. Patients were chosen based on the follow-up time and development of a distant metastasis. First a balanced sample size of five versus five patients with and without a metastatic event was choosen. This needed to be changed to six versus four.

2018-05-23 | GSE100109 | GEO

Comparison of rectal patient data separated by their event of developing distant metastasis

Project description:Comparison of rectal patient data separated by their event of developing distant metastasis

| PRJNA390729 | ENA

Homo sapiens

Project description:Comparison of rectal patient data separated by their event of developing distant metastasis [Agilent]

| PRJNA390733 | ENA

Homo sapiens

Project description:Comparison of rectal patient data separated by their event of developing distant metastasis [RNA-Seq]

| PRJNA389973 | ENA

Malignant peripheral nerve sheath tumor (MPNST) tumor samples

Project description:Malignant peripheral nerve sheath tumor (MPNST) is an aggressive sarcoma. Comprehensive proteomic profiles of 23 MPNST tumor specimens were obtained using LC-MS/MS. Among 23 tumor specimens, 13 patients showed favorable prognosis and 10 did local recurrence/distant metastasis.

2022-12-22 | PXD030585 | JPOST Repository

Homo sapiens

Project description:miR-1246 association with distant metastasis and poor prognosis in breast cancer patients

| PRJNA282533 | ENA

MicroRNA Signatures Correlate with Diagnosis, Distant Metastasis and Prognosis in nasopharyngeal carcinoma

Project description:microRNA signatures with diagnosis, distant metastasis and prognosis for nasopharyngeal carcinoma

2012-05-10 | GSE36682 | GEO

Colorectal cancer susceptibility loci as predictive markers of rectal cancer prognosis after surgery

Project description:To understand the molecular mechanism of rectal cancer and develop markers for disease prognostication, we generated and explored a dataset from 243 rectal cancer patients by gene expression microarray analysis of cancer samples and matched controls, and SNP-arrays of germline DNA. We found that two of the loci most strongly linked with colorectal cancer (CRC) risk, 8q24 (upstream of MYC) and 18q21 (in the intron of SMAD7), as well as 20q13 (in the intron of LAMA5), are tightly associated with the prognosis of rectal cancer patients. For SNPs on 18q21 (rs12953717 and rs4464148) and 20q13 (rs4925386), alleles that correlate with higher risk for the development of CRC are associated with shorter disease free survival (DFS). However, for rs6983267 on 8q24, the low risk allele is associated with a higher risk for recurrence and metastasis after surgery, and importantly, is strongly correlated with the resistance of CRC cell lines to chemoradiotherapy (CRT). We also found that although MYC expression is dramatically increased in cancer, patients with higher levels of MYC have a better prognosis. The expression of SMAD7 is weakly correlated with DFS. Notably, the presence of the 8q24 and 18q21 SNP alleles is not correlated with expression levels of MYC and SMAD7. rs4464148, and probably rs6983267 and rs4925386, are linked with overall survival time of patients. In conclusion, we show that several CRC risk SNPs detect subpopulations of rectal cancer patients with poor prognosis, and that rs6983267 probably affects prognosis through interfering with the resistance of cancer cells to CRT.

2017-11-28 | GSE87211 | GEO

Differential expression of genes and protein networks in the primary breast tumor that proceed to distant metastasis

Project description:The presence or absence of lymph node metastasis plays a major role in the prediction of prognosis and subsequent patient management. However, good proportion of patients who display lymph node positivity remain disease free for 3 years or more, after the initial treatment, while a third of those who were lymph node negative at presentation, develop distant metastasis within the same period. We performed gene expression profiling on a cohort Indian breast cancer patients followed up for a period of 3-5 years and in comparison with a previously published Caucasian cohort data, we identified gene signatures that are associated with distant metastasis. This association was irrespective of the hormone receptor status. Our results show that the genes that signify immune system development and response are repressed, while factors for DNA replication are up regulated in patients who develop distant metastasis. A large number of genes encoding proteins involved in the mitotic spindle formation that belong to the TRIM28 protein network, are differentially regulated in the metastatic tumors. Also, there was a significant overlap of genes reported in a mouse model of bone metastasis, with patients who developed bone metastasis in our cohort. In conclusion, we present for the first time probable gene signatures that correlate with distant metastasis in breast cancer patients irrespective of nodal or hormone receptor status

2016-02-10 | GSE40206 | GEO

Transcription profiling of human Ewing sarcoma primary tumors of patients to determine molecular predictors of outcome.

Project description:The improvement of Ewing's sarcoma (EWS) therapy is currently linked to find strategies to select patients with poor and good prognosis at diagnosis and to generate modified treatment regimens. In this study, we analyze the molecular factors governing EWS response to chemotherapy in order to identify genetic signatures that may be used for risk-adapted therapy. Experiment Overall Design: Affimetrix platform was used for profiling 30 primary tumors of patients that were classified according to event-free survival and 7 metastasis. NED: no evidence of diseaase (event-free); REL: relapse; MET: metastasis. For selected genes, Real-Time PCR was applied in 42 EWS primary tumors as validation assay. MTT test was used to evaluate in vitro drug sensitivity.

2008-10-21 | E-GEOD-12102 | 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