Claudin2 Upregulation: IBD and colitis-associated colon cancer
Expression microarray · mouse · 36 samples
- What it is
- Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
- Organism
- Mus musculus (mouse)
- Samples
- 36 samples: 9 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed expression table (series matrix) and the array files, from NCBI.
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE207221_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.
Also filed as BioProject PRJNA854172 and SRA study SRP384233. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 36 sample titles; they account for 18 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM6281770 CI2KO-1_S4_L001
- GSM6281771 CI2KO-2_S5_L001
- GSM6281772 CI2KO-3_S6_L001
- GSM6281773 Riz-19-134_S16_L001
- GSM6281774 Riz-19-136_S17_L001
- GSM6281775 Riz-19-137_S18_L001
- GSM6281776 Riz-19-140_S13_L001
- GSM6281777 Riz-19-143_S14_L001
- GSM6281778 Riz-19-144_S15_L001
- GSM6281779 Riz-19-56_S7_L001
- GSM6281780 Riz-19-57A_S11_L001
- GSM6281781 Riz-19-58_S8_L001
- GSM6281782 Riz-19-59_S9_L001
- GSM6281783 Riz-19-61_S10_L001
- GSM6281784 Riz-19-63_S12_L001
- GSM6281785 WT1_S1_L001
- GSM6281786 WT2_S2_L001
- GSM6281787 WT3_S3_L001
- GSM6281788 R1_ACAGTG_L001 R1_ACAGTG_L
- GSM6281789 R2_GCCAAT_L001 R2_GCCAAT_L
- GSM6281790 R3_CTTGTA_L001 R3_CTTGTA_L
- GSM6281791 R4_GTGAAA_L001 R4_GTGAAA_L
- GSM6281792 R5_CGATGT_L001 R5_CGATGT_L
- GSM6281793 R6_TGACCA_L001 R6_TGACCA_L
- GSM6281794 R7_CAGATC_L001 R7_CAGATC_L
- GSM6281795 R8_CCGTCC_L001 R8_CCGTCC_L
- GSM6281796 R9_ATCACG_L001 R9_ATCACG_L
- GSM6281797 R1_ACAGTG_L002 R1_ACAGTG_L
- GSM6281798 R2_GCCAAT_L002 R2_GCCAAT_L
- GSM6281799 R3_CTTGTA_L002 R3_CTTGTA_L
- GSM6281800 R4_GTGAAA_L002 R4_GTGAAA_L
- GSM6281801 R5_CGATGT_L002 R5_CGATGT_L
- GSM6281802 R6_TGACCA_L002 R6_TGACCA_L
- GSM6281803 R7_CAGATC_L002 R7_CAGATC_L
- GSM6281804 R8_CCGTCC_L002 R8_CCGTCC_L
- GSM6281805 R9_ATCACG_L002 R9_ATCACG_L
- GSE207220 Claudin2 Upregulation: IBD and collitis-associated colon cancer [overexpression] 18 samples shares claudin2, ibd, upregulation, colon
- GSE207219 Claudin2 Upregulation: IBD and colitis-associated cancer [knockout] 18 samples shares claudin2, ibd, colitis-associated, upregulation
- GSE302850 Time-Series Multi-Omics Identifies ZG16 as a Prognostic Immunoregulatory Driver of Colitis-associated Colon Cancer Development and Checkpoint Blockade Response 5 samples shares colitis-associated, colon
- GSE312733 Single-cell RNA-seq of colonic tumors from epithelial HO-1 knockout and control mice in a colitis-associated cancer model 4 samples shares colitis-associated, colon
- GSE243692 Small molecule probe for IBD risk variant GPR65 I231L alters cytokine signaling networks through positive allosteric modulation 90 samples shares ibd
- GSE223224 Thymopentin ameliorates experimental colitis by inhibiting neutrophil extracellular traps: an alternative way to restore immune balance in IBD? 12 samples shares ibd
- GSE239475 Effects of methionine, tryptophan, and niacin deficient diets on gene expression in intestinal cells in the DSS drinking IBD mouse model. 9 samples shares ibd
- GSE275920 Neurogenic Monocyte Recruitment Drives Pathogenic Enteric Nervous System Remodeling in IBD 4 samples shares ibd
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.