ITPK1 sensitizes tumor cells to IgA-dependent neutrophil killing in vivo
RNA-seq (gene expression) · mouse · 24 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
- Mus musculus (mouse)
- Samples
- 24 samples: 21 distinct titles, 2 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
- ITPK1 Sensitizes Tumor Cells to IgA-dependent Neutrophil Killing In VivoJournal of immunology (Baltimore, Md. : 1950) · 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 GSE273588_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 PRJNA1142465 and SRA study SRP523354. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 24 sample titles: 21 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.
- GSM8432705 Ba/F3_invitro_bulkRNA_rep1
- GSM8432706 Ba/F3_invitro_bulkRNA_rep2
- GSM8432707 Ba/F3_invitro_bulkRNA_rep3
- GSM8432708 M 1_WT+library
- GSM8432709 M 1_KO+library
- GSM8432710 M 2_WT+library
- GSM8432711 M 2_KO+library
- GSM8432712 M 3_WT+library
- GSM8432713 M 3_KO+library
- GSM8432714 M 4_WT+library
- GSM8432715 M 4_KO+library
- GSM8432716 M 5_WT+library
- GSM8432717 M 5_KO+library
- GSM8432718 M 6_WT+library
- GSM8432719 M 6_KO+library
- GSM8432720 M 7_WT+library
- GSM8432721 M 7_KO+library
- GSM8432722 M 8_WT+library
- GSM8432723 M 8_KO+library
- GSM8432724 Baseline_WT+library
- GSM8432725 Baseline_KO+library
- GSM8432726 Ba/F3_focused_screen_raw_file_1
- GSM8432727 Ba/F3_focused_screen_raw_file_2
- GSM8432728 Ba/F3_Genome_wide_screen
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- GSE289275 Loss of ADAR1 in tumor cells activates cDC1s and sensitizes pancreatic cancer to immunotherapy 14 samples shares sensitizes
- GSE280057 Gene expression profile at single cell level of tumor-infiltrating neutrophils (TINs) of cholangiocarcinoma (CCA) tumors 52 samples shares neutrophil
- GSE272923 Complex I Inhibition combined with TLR Activation in the Breast Tumor Microenvironment Educates Cytotoxic Neutrophils. 35 samples shares neutrophil
- GSE327176 Single-cell transcriptomic profiling unveils tumor-mediated reprogramming of neutrophils and their unique vulnerability that inhibits metastasis 25 samples shares neutrophil
- GSE268240 Gene expression profiling of neutrophils isolated from bone marrow, spleen and tumor of H16sc-IS1-tumor-bearing mice treated with anti-IL1RAP or untreated. 24 samples shares neutrophil
- GSE240840 Tumor-associated neutrophils attenuate the immuno-sensitivity of hepatocellular carcinoma and curtail immunotherapy response 23 samples shares neutrophil
- GSE240838 Tumor-associated neutrophils attenuate the immuno-sensitivity of hepatocellular carcinoma and curtail immunotherapy response [RNA-Seq] 17 samples shares neutrophil
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.