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TranscriptomicsArray comparative genomic hybridization (aCGH) study of formalin-fixed paraffin-embedded (FFPE) small gastrointestinal stromal tumors (GISTs) less than 1 cm in greatest diameter (microGISTs)
To investigate the cytogenetic and large-scale chromosomal changes in involuted or non-involuted microGISTs using post-whole genome amplification (WGA) FFPE DNA materials Sixteen patients, total 19 FFPE tumor samples (block storage time 4 months to 9 years), including 16 microGISTs and 3 GISTs large...
ORGANISM(S): Homo sapiens 
2011-12-31 | E-GEOD-28469 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse after ICN1 overexpression from retroviral vectors were introduced into bone marrow cell - soncogenesis of T-ALL and non-malignant consequences of overexpressing NOTCH1
We have determined the consequences of ICN1 overexpression from retroviral vectors introduced into bone marrow cells. Even though the tumors consist of phenotypically heterogeneous cells, no evidence for tumor stem cells was found. Experiment Overall Design: Expression analysis, array-based compara...
ORGANISM(S): Mus musculus 
2008-11-13 | E-GEOD-12948 | biostudies-arrayexpress
TranscriptomicsAltered antisense-to-sense transcript ratios in breast cancer: Sage-Seq
Transcriptome profiling studies suggest that a large fraction of the genome is transcribed and many transcripts function independent of their protein coding potential. The relevance of noncoding RNAs (ncRNAs) in normal physiological processes and in tumorigenesis is increasingly recognized. Here, we...
ORGANISM(S): Homo sapiens 
2010-12-10 | E-GEOD-25291 | biostudies-arrayexpress
TranscriptomicsFeedback Circuit among INK4 Tumor Suppressors Constrains Human Glioblastoma Development
We have developed a nonheuristic genome topography scan (GTS) algorithm to characterize the patterns of genomic alterations in human glioblastoma (GBM), identifying frequent p18INK4C and p16INK4A codeletion. Functional reconstitution of p18INK4C in GBM cells null for both p16INK4A and p18INK4C resul...
ORGANISM(S): Homo sapiens 
2008-04-29 | E-GEOD-9200 | biostudies-arrayexpress
TranscriptomicsHuman GBM tumor vs Normal Human DNA
We have developed a nonheuristic genome topography scan (GTS) algorithm to characterize the patterns of genomic alterations in human glioblastoma (GBM), identifying frequent p18INK4C and p16INK4A codeletion. Functional reconstitution of p18INK4C in GBM cells null for both p16INK4A and p18INK4C resul...
ORGANISM(S): Homo sapiens 
2008-04-29 | E-GEOD-9177 | biostudies-arrayexpress
GenomicsIntra-tumor heterogeneity of localized lung adenocarcinomas defined by multi-region sequencing
Background: Intra-tumor heterogeneity (ITH) may have profound impacts on biopsy strategy, characterization of actionable targets, treatment planning, and drug resistance. ITH of lung cancers has not been well studied. Methods: We performed multi-region whole exome sequencing (average sequencing de...
EGAS00001000930 | EGA
Genomicsena-DATASET-MDACC-20-08-2014-16:58:44:853-680 - samples
This is the targeted capture deep sequencing (TCS) data for validation of the mutations discovered in the WES step. There are 58 bam files of TCS data including 48 tumor samples and 10 peripheral blood WBC samples.
EGAD00001000985 | EGA
TranscriptomicsTranscription profiling of mouse multiple myeloma tumors and splenic B cells from transgenics overexpressing XBP-1s
Multiple myeloma (MM) evolves from highly prevalent premalignant condition termed Monoclonal Gammopathy of Undetermined Significance (MGUS). We report an MGUS-MM phenotype arising in transgenic mice with Emu-directed expression of the unfolded protein/ER stress response and plasma cell development ...
ORGANISM(S): Mus musculus 
2007-11-06 | E-GEOD-6980 | biostudies-arrayexpress
Genomicsena-DATASET-MDACC-20-08-2014-16:52:57:923-677 - samples
This is the Whole Exome Sequencing (WES) data from 59 samples from 11 patients with lung adenocarcinomas including 48 tumor samples and 11 peripheral white blood cell samples
EGAD00001000984 | EGA
GenomicsAndy Futreal
Data Access Committee EGAC00001000223
EGAC00001000223 | EGA
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