Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

113 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of human dormant and angiogenic breast cancer, osteosarcoma, liposarcoma and brain tumor cell lines

ABSTRACT: The Goal of this study is to explore the transcriptional differences between angiogenic and non-angiogenic tumors generated in Dr. Folkman's Lab, Harvard Medical School.
Referneces:
Almog N, Henke V, Flores L, Hlatky L, Kung AL, Wright RD, Berger R, Hutchinson L, Naumov GN, Bender E, Akslen LA, Achilles EG, Folkman J.
Prolonged dormancy of human liposarcoma is associated with impaired tumor angiogenesis.
FASEB J. 2006 May;20(7):947-9.

Naumov GN, Bender E, Zurakowski D, Kang SY, Sampson D, Flynn E, Watnick RS, Straume O, Akslen LA, Folkman J, Almog N.
A model of human tumor dormancy: an angiogenic switch from the nonangiogenic phenotype.
J Natl Cancer Inst. 2006 Mar 1;98(5):316-25.

ORGANISM(S): Homo sapiens

DISEASE(S): liposarcoma

SUBMITTER: Amir Abdollahi

PROVIDER: E-TABM-390 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Transcriptional switch of dormant tumors to fast-growing angiogenic phenotype.

Almog Nava N Ma Lili L Raychowdhury Raktima R Schwager Christian C Erber Ralf R Short Sarah S Hlatky Lynn L Vajkoczy Peter P Huber Peter E PE Folkman Judah J Abdollahi Amir A

Cancer research 20090127 3

Tumor dormancy has important implications for early detection and treatment of cancer. Lack of experimental models and limited clinical accessibility constitute major obstacles to the molecular characterization of dormant tumors. We have developed models in which human tumors remain dormant for a prolonged period of time (>120 days) until they switch to rapid growth and become strongly angiogenic. These angiogenic tumors retain their ability to grow fast once injected in new mice. We hypothesize ...[more]

PMID: 19176381

Similar Datasets

Transcription profiling time series of human HeLa cells cultivated while sterol depleted from the medium

Project description:The aim of the experiment was to identify novel genes with relevance to cellular cholesterol metabolism. HeLa cells were cultivated while sterol was depleted from the medium by applying 2-Hydroxypropyl-cyclodextrin. RNA for expression profiling was isolated 3h, 4.5h and 6h after depletion.

2008-12-17 | E-TABM-599 | biostudies-arrayexpress

Transcription profiling of human dermal microvascular endothelial, fibroblast, and glioblastoma cells treated with mycophenolic acid

Project description:The effect of Mycophenolic acid on primary isolated human dermal microvascular endothelial (HDMVEC) and fibroblast cells as well as human glioblastoma brain tumor cell line (U87).

2008-06-25 | E-TABM-315 | biostudies-arrayexpress

Transcription profiling of human neuro-invasive pancreatic tumors engineered in-vitro compared to less invasive parental cells

Project description:Perineural invasion (PNI) is considered to be a specific path for the spread of pancreatic cancer cells and PNI is thought to be one of the important factors that determine local recurrence after resection. In addition PNI has been implicated in the pain syndrome that affects the majority of pancreatic ductal adenocarcinoma (PDAC) patients. Here we aimed to investigate the transcriptional differences between neuro-invasive tumors engineered in-vitro compared to less invasive parental cells. Two colour differential hybridisations were performed with human universal reference total RNA (Clontech, #636538).

2009-04-01 | E-TABM-400 | biostudies-arrayexpress

Transcription profiling of human hepatic and pancreatic stellate cells obtained from tissues of chronic inflammation, and primary or metastatic cancers

Project description:Differences in the expression profile of hepatic and pancreatic stellate cells are investigated. Aim is to identify organ and disease specific transcriptome signatures of stellate cells, comparing hepatic and pancreatic stellate cells obtained from tissues of chronic inflammation, and primary or metastatic cancers of the pancreas. Tissues of chronic pancreatitis (n=6), pancreatic ductal adenocarcinoma (n=5), liver cirrhosis (n=5) and liver metastasis of pancreatic ductal adenocarcinoma (n=6) were collected and stellate cells were isolated by the outgrowth method. Using cDNA microarrays, differentially expressed genes are identified.

2010-01-15 | E-TABM-625 | biostudies-arrayexpress

Comparative genomic hybridization of samples from patients with head and neck squamous cell carcinoma and anemia against normal DNA

Project description:Anaemia negatively affects the prognosis of patients with head and neck squamous cell carcinoma (HNSCC). This study investigates whether anaemia is associated to genetic changes and whether these changes predict the clinical outcome.

2007-12-27 | E-TABM-359 | biostudies-arrayexpress

Everolimus

Project description:The effect of Everolimus (RAD001) on primary isolated human dermal microvascular endothelial (HDMVEC) and Fibroblast Cells as well as human glioblastoma brain tumor cell line (U87).

2013-11-12 | E-MEXP-3802 | biostudies-arrayexpress

Transcription profiling of mouse aorta (whole or regions) from mice of different embryonic ages

Project description:In order to identify novel regulators of haematopoietic stem cell emergence in the mouse embryonic AGM region, 3 different types of gene expression comparisons were performed. In the first one, whole dorsal aortas from embryonic day (E) 11 embryos and E9 embryos were dissected, tissues from each time point were pooled and their expression profile compared (whole aorta (WA) E9 vs E11). 3 different pools/biological replicas were obtained for each time point, a dye swap was included in each experiment, a technical replicate was performed for each pool (including the dye swap) and 2 self-self hybridisation controls were included. In the second comparison, GFP+ cells were isolated by fluorescence-activated cell sorting from pooled E9 and E11 aortas from transgenic embryos that express GFP under the regulatory elements of the Ly-6A gene. We obtained one pool for each time point and compared their transcription profile (GFP E9 vs E11). This comparison also contained a dye swap and a technical replicate (also of the dye swap). In the third comparison, the E11 aorta was cut into 3 roughly equal parts. Pools were obtained of the middle region ("m") and the two outer regions, rostral and caudal, together ("r+c") and their expression profile compared (11AO m vs r+c). There was one pool of each population, and the experiment included a dye swap and a technical replicate (also of the dye swap) and one self-self hybridisation control. Isolated RNA was amplified by T7-mediated in vitro transcription, with one round for the first and the third comparison and two rounds for the second comparison (sorted GFP+ cells). Probes were labelled during the reverse transcription step. Within array normalisation was achieved with Lowess Smooth and between arrays with Z scores. ANOVA analysis identified differentially expressed genes and K means clustering was used to segregate them into upregulated and downregulated genes.

2009-06-06 | E-TABM-659 | biostudies-arrayexpress

Transcription profiling of liver from wild type and tumor suppressor Apc knock-out mice

Project description:A "Cartes d'Identite des Tumeurs" (CIT) project from the french Ligue Nationale Contre le Cancer (http://cit.ligue-cancer.net). This work aims to demonstrate a key role for the Wnt/beta-catenin pathway in liver embryonic growth and in controlling the fate of hepatoblasts, preventing them to differentiate towards the hepatocyte lineage, and guiding them to a duct morphogenesis. Through the inactivation of Apc (adenomatous Polyposis Coli) tumor suppressor gene in hepatoblasts by a Cre-loxP strategy, the ectopic activation of beta-catenin targeted in hepatoblasts after liver bud formation leads to a lethal embryonic phenotype, characterized by liver hypoplasia, a blockade of hepatocyte differentiation and commitment to a biliary fate. (this work was supported by INSERM and the B^SLigue Nationale

2007-08-07 | E-TABM-295 | biostudies-arrayexpress

Transcription profiling of T. brucei bloodstream and procyclic forms to look at differential expression of membrane-trafficking genes

Project description:To look at differential expression of membrane-trafficking genes, we extracted RNA from exponentially growing cultures of T. brucei bloodstream (BSF) and procyclic (PCF) forms, labelled and competitively hybridised the cDNA to the microarray. 8 arrays, representing 6 BSF and 5 PCF biological replicates, as well as dye swaps were used.

2008-06-26 | E-MEXP-1529 | biostudies-arrayexpress

Transcription profiling of T. brucei cell lines over-expressing wild type RAB5A or mutant versions of RAB5A or RAB5B locked in the GTP-bound state

Project description:As a test of trypanosome transcriptome responsiveness, we analysed the effects of over-expression of the early endosome small GTPase Rab5A in procyclic form T.brucei, which results in significant augmentation of fluid phase and receptor-mediated endocytic activity (Pal et al. 2002). part 1: 2 PCFWT and 2 PCF5AWT-OE (PCF cell lines over-expressing a wildtype version of RAB5A) biological replicates, as well as dye swaps were used. part 2: 2 PCFWT and 2 PCF5AQL-OE (PCF cell lines over-expressing a mutant version of RAB5A locked in the GTP-bound state) biological replicates, as well as dye swaps were used. part 3: 2 PCFWT and 2 PCF5BQL-OE (PCF cell lines over-expressing a mutant version of RAB5B locked in the GTP-bound state) biological replicates, as well as dye swaps were used.

2008-06-26 | E-MEXP-1539 | biostudies-arrayexpress

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