Dataset Information


RNA sequencing of purified intestinal epithelial cells from paediatric biopsies including Inflammatory Bowel Disease and healthy controls

ABSTRACT: This study investigated alterations in the transcriptomic profiles of intestinal epithelial cells in Inflammatory Bowel Diseases (IBD), i.e. Crohn's Disease and Ulcerative Colitis. Biopsies were taken from treatment-naive paediatric patients at diagnostic endoscopy from terminal ileum (TI), ascending colon (AC) and sigmoid colon (SC). Intestinal epithelial cells were purified using enzyme digestion and magnetic bead separation. RNA extraction was performed on EpCAM-positive cells, using AllPrep DNA/RNA mini kit. An Agilent Bioanalyzer was used to check RNA integrity following the manufacturer’s guidelines. mRNA was sequenced at the University of Kiel, Germany.

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Homo sapiens

SUBMITTER: Judith Kraiczy 

PROVIDER: E-MTAB-5464 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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DNA Methylation and Transcription Patterns in Intestinal Epithelial Cells From Pediatric Patients With Inflammatory Bowel Diseases Differentiate Disease Subtypes and Associate With Outcome.

Howell Kate Joanne KJ   Kraiczy Judith J   Nayak Komal M KM   Gasparetto Marco M   Ross Alexander A   Lee Claire C   Mak Tim N TN   Koo Bon-Kyoung BK   Kumar Nitin N   Lawley Trevor T   Sinha Anupam A   Rosenstiel Philip P   Heuschkel Robert R   Stegle Oliver O   Zilbauer Matthias M  

Gastroenterology 20171012 3

<h4>Background & aims</h4>We analyzed DNA methylation patterns and transcriptomes of primary intestinal epithelial cells (IEC) of children newly diagnosed with inflammatory bowel diseases (IBD) to learn more about pathogenesis.<h4>Methods</h4>We obtained mucosal biopsies (N = 236) collected from terminal ileum and ascending and sigmoid colons of children (median age 13 years) newly diagnosed with IBD (43 with Crohn's disease [CD], 23 with ulcerative colitis [UC]), and 30 children without IBD (co  ...[more]

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