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MetabolomicsMetabolomics analysis of colon adenoma in African Americans
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ORGANISM(S): Homo sapiens 
ST000366 | MetabolomicsWorkbench
TranscriptomicsWhole-exome sequencing (WES) to assess genomic concordance between an adenoma/adenocarcinoma colonoid culture 14-881 and the source patient tissue
A patient-derived epithelium-only colon rectal organoid, also referred to as a colonoid, was generated from an adenoma (associated with a resection surgery of an invasive moderately differentiated colorectal adenocarcinoma) as part of the development of an on-going organoid biobank at the Michigan M...
ORGANISM(S): Homo sapiens 
2020-12-22 | E-MTAB-9936 | biostudies-arrayexpress
TranscriptomicsRNA-seq of LGR5(+) and LGR5(-) cells isolated from human colon adenoma organoids and targeted DNA-seq of a colorectal biobank
This study has two components: (1) Human colon adenoma organoids (n=4 patients) were dissociated into single cells. Cells were incubated with a magnetic bead bound to an LGR5 antibody and run through a magnetic column. Magnet bound cells and flow through negative (FTN) cells were obtained. Magnet bo...
ORGANISM(S): Homo sapiens 
2020-04-30 | E-MTAB-4698 | biostudies-arrayexpress
TranscriptomicsComplex Patterns of Altered MicroRNA Expression during the Adenoma-Adenocarcinoma Sequence for Microsatellite-stable Colorectal Cancer
We searched the database of the Department of Pathology at The University of Texas MD Anderson Cancer Center and selected 21 patients who had invasive microsatellite-stable colorectal adenocarcinoma arising from a pre-existing adenoma and adjacent non-neoplastic mucosa in a resection specimen to per...
ORGANISM(S): Homo sapiens 
2012-08-17 | E-MTAB-813 | biostudies-arrayexpress
ProteomicsProteome Landscapes of the Human Colorectal Mucosa, and its Adenoma and Cancer
Adenomatous polyps in the colorectal tract are benign tumors with the potential to develop cancer. In this study we perform a large scale proteomic study of comparing the proteomes of colorectal enterocytes (N) and the cells of the adenoma (A) and cancer (C). Using formalin fixed and paraffin embedd...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-10 | MSV000080620 | MassIVE
TranscriptomicsThe transcription factor GATA6 allows self-renewal of colon adenoma stem cells by repressing BMP gene expression.
Aberrant activation of WNT signaling and loss of BMP signals represent the two main alterations leading to the initiation of colorectal cancer (CRC). Here we screen for genes required for maintaining the tumor stem cell phenotype and identify the zinc-finger transcription factor GATA6 as key regulat...
ORGANISM(S): Mus musculus 
2014-06-19 | E-GEOD-49479 | biostudies-arrayexpress
TranscriptomicsGlobal DNA methylation alterations reveal multiple pathways in the initiation and progression of colorectal cancer
Genetic and epigenetic alterations are a fundamental aspect of colorectal cancer formation. There is considerable heterogeneity between colorectal cancers regarding the mutations and methylated genes they carry, and this heterogeneity may arise early in the polyp-cancer sequence. However, our unde...
ORGANISM(S): Homo sapiens 
2014-09-08 | E-GEOD-48684 | biostudies-arrayexpress
TranscriptomicsGene expression analysis of human adenomas.
Gene expression profiling was carried out in 7 matched colon adenoma samples and normal mucosa to characterize the molecular mechanisms relevant to the etiology ofadenoma and human colorectal carcinoma development. Whole-transcriptome RNA sequencing of the 7 matched colon adenoma samples and normal ...
ORGANISM(S): Homo sapiens 
2016-09-08 | E-GEOD-72820 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human colon biopsy samples from healthy individuals and patients with colon adenomas, colorectal cancer or inflammatory bowel disease
Background and Aims: Gene expression analysis of colon biopsies using high-density oligonucleotide microarray can contribute to the understanding of local pathophysiological alterations and to functional classification of precancerous adenoma, different stage colorectal carcinomas (CRC) and inflamma...
ORGANISM(S): Homo sapiens 
2008-06-12 | E-GEOD-4183 | biostudies-arrayexpress
TranscriptomicsLong-term in vitro expansion of epithelial organoids from human colon, adenoma, adenocarcinoma and Barrett's Esophagus
Background & Aims: We have recently established long-term culture conditions under which single crypts or stem cells derived from murine small intestine expand over long periods of time. Growing crypts undergo multiple crypt fission events, whilst simultaneously generating villus-like epithelial dom...
ORGANISM(S): Homo sapiens 
2011-12-07 | E-GEOD-28907 | biostudies-arrayexpress
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