Human-Specific Elimination of Epithelial Siglec-XII Suppresses the Risk of CRC Initiation and Progression
RNA-seq (gene expression) · human · 21 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 21 samples: 16 distinct titles, 5 of them repeatedGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Human-specific elimination of epithelial Siglec-XII suppresses the risk of inflammation-driven colorectal cancersJCI insight · 2024
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 GSE262088_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 RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1090166 and SRA study SRP496775. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 21 sample titles: 16 distinct titles with little repetition. 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.
- GSM8157282 Caco-2_pCDNA_3_1-Empty_Vector_1_S73
- GSM8157283 Caco-2_pCDNA_3_1-Empty_Vector_2_S74
- GSM8157284 Caco-2_pCDNA_3_1-Empty_Vector_3_S75
- GSM8157285 Caco-2_pCDNA_3_1-Empty_Vector_4_S76
- GSM8157286 Caco-2_pCDNA_3_1-Siglec12_1_S77
- GSM8157287 Caco-2_pCDNA_3_1-Siglec12_2_S78
- GSM8157288 Caco-2_pCDNA_3_1-Siglec12_3_S79
- GSM8157289 Caco-2_pCDNA_3_1-Siglec12_4_S80
- GSM8157290 Colon, Control_1_S57
- GSM8157291 Colon, Control_2_S58
- GSM8157292 Colon, Control_3_S59
- GSM8157293 Colon, Control_4_S60
- GSM8157294 Colon, SiglecXII_1_S61
- GSM8157295 Colon, SiglecXII_2_S62
- GSM8157296 Colon, SiglecXII_3_S63
- GSM8157297 Colon, SiglecXII_4_S64
- GSM8157298 Colon, Control_1_S67
- GSM8157299 Colon, Control_4_S69
- GSM8157300 Colon, SiglecXII_2_S71
- GSM8157301 Colon, SiglecXII_3_S72
- GSM8157302 Colon, SiglecXII_4_S73
- GSE298580 Dual inhibition of FACT and RRM2 suppresses the progression of pancreatic ductal adenocarcinoma driven by the oncohistone H2BG53D 64 samples shares progression, suppresses
- GSE282765 Eosinophils restrict CRC metastasis by inhibiting pro-tumorigenic Spp1+ macrophage differentiation. 42 samples shares crc
- GSE215245 Elimination of dormant cancer stem cells by disrupting glucocorticoid mediated lipid metabolism in glioblastoma 59 samples shares elimination
- GSE333317 Adrenal-derived factors drive progression of sclerotic prostate cancer in bone 48 samples shares progression
- GSE245733 HNF4G and FOXA1 are context-specific drivers of pancreatic cancer progression [RNA-seq] 29 samples shares progression
- GSE298852 NSMF Mitigates Excessive Replication Stress to Facilitate Colorectal Cancer Progression 26 samples shares progression
- GSE278785 Obesity facilitated colon cancer progression is mediated by increased diacylglycerol o-acyltransferases 1 and 2 (DGAT1/2) levels [RNA-seq] 26 samples shares progression
- GSE245949 Failed reprogramming of transformed cells due to induction of apoptosis and senescence impairs tumor progression in lung cancer 24 samples shares progression
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.