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Studying relative gene expression in primary and xenograft CRC samples

ABSTRACT: To compare the gene expression profile in primary human colorectal cancer samples and samples passaged in mice for two generations

ORGANISM(S): Homo sapiens

PROVIDER: GSE63544 | GEO | 2014/11/22

SECONDARY ACCESSION(S): PRJNA268182

REPOSITORIES: GEO

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Studying relative gene expression in primary and xenograft CRC samples

Project description:To compare the gene expression profile in primary human colorectal cancer samples and samples passaged in mice for two generations Primary human CRC samples were implanted in mice and allowed to grow for 2 generations. The tumors were then excised and a relative expression profile was evaluated to see similarity/dissimilarity between the two.

2014-11-22 | E-GEOD-63544 | biostudies-arrayexpress

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Epigenetic profiles of CRC-derived samples by scGET-seq

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CRC samples for FOLFOX therapy prediction

2011-11-21 | GSE28702 | GEO

Expression data from normal and CRC human peripheral blood samples

Project description:The whole-genome oligonucleotide microarray analysis of peripheral blood samples can contribute to the determination of distant blood markers of local pathophysiological alterations in colorectal diseases. These markers can lead to alternative screening procedures. Keywords: whole genomic expression Total RNA was extracted from peripheral blood samples of healthy patients and patients with CRC and hybridized on Affymetrix HGU133 Plus 2.0 microarrays

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CRC proteomic analysis by LC MS/MS

Project description:analysis of fecal samples in colorectal cancer Egyptians patients

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Exon array data for patient-matched primary and metastatic colorectal samples

Project description:Samples were taken from surgically resected tumor specimens/metastases from patients with colorectal cancer. The expression profiles were determined using the Affymetrix GeneChip Human Exon 1.0 ST Array version 2.

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Analysis of copy number changes in primary and metastatic colorectal cancer samples

Project description:Structural rearrangements form a major class of somatic variation in cancer genomes. Local chromosome shattering, termed chromothripsis, is a mechanism proposed to be the cause of clustered chromosomal rearrangements and was recently described to occur in a small percentage of tumors. The significance of these clusters for tumor development or metastatic spread is largely unclear. We used genome-wide long mate-pair sequencing and SNP array profiling to reveal that chromothripsis is a widespread phenomenon in primary colorectal cancer and metastases. We find large and small chromothripsis events in nearly every colorectal tumor sample and show that several breakpoints of chromothripsis clusters and isolated rearrangements affect cancer genes, including NOTCH2, EXO1 and MLL3. We complemented the structural variation studies by sequencing the coding regions of a cancer exome in all colorectal tumor samples and found somatic mutations in 24 genes, including APC, KRAS, SMAD4 and PIK3CA. A pairwise comparison of somatic variations in primary and metastatic samples indicated that in many chromothripsis clusters, isolated rearrangements and point mutations are exclusively present in either the primary tumor or the metastasis and may affect cancer genes in a lesion-specific manner. We conclude that chromothripsis is a prevalent mechanism driving structural rearrangements in colorectal cancer and show that a complex interplay between point mutations, simple copy number changes and chromothripsis events drive colorectal tumor development and metastasis.

2011-10-12 | GSE32711 | GEO

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