Differentially expressed genes in bone marrows from C57/BL6 wild-type, Cdk19null, Cdk8flox/flox VaviCe or DKO (Cdk8 flox/flox Vav-iCre Cdk19null) or iVavCre control
RNA-seq (gene expression) · mouse · 19 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
- 19 samples: 5 conditions, mostly with about 4 replicates eachGroups 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
- Transcriptional cyclin-dependent kinases Cdk8 and Cdk19 are required for normal macrophage differentiationCell cycle (Georgetown, Tex.) · 2025
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 GSE301315_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 PRJNA1284793 and SRA study SRP597265. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 19 samples.
How we read this: 5 replicated groups read from 19 sample titles; they account for 19 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.
- GSM9080902 WT_1 WT
- GSM9080903 WT_2 WT
- GSM9080904 WT_3 WT
- GSM9080905 VAV_1 VAV
- GSM9080906 VAV_2 VAV
- GSM9080907 VAV_3 VAV
- GSM9080908 VAV_4 VAV
- GSM9080909 CDK8KO_1 CDK8KO
- GSM9080910 CDK8KO_2 CDK8KO
- GSM9080911 CDK8KO_3 CDK8KO
- GSM9080912 CDK8KO_4 CDK8KO
- GSM9080913 CDK19KO_1 CDK19KO
- GSM9080914 CDK19KO_2 CDK19KO
- GSM9080915 CDK19KO_3 CDK19KO
- GSM9080916 CDK19KO_4 CDK19KO
- GSM9080917 DKO_1 DKO
- GSM9080918 DKO_2 DKO
- GSM9080919 DKO_3 DKO
- GSM9080920 DKO_4 DKO
- GSE301317 Differentially expressed genes in Bone-Marrow Derived Macrophages (M0) from DKO (Cdk8 flox/flox Vav-iCre Cdk19null) or VavCre control 8 samples shares cdk19null, cdk8, dko, differentially, expressed
- GSE291439 C57BL6 Substrain Differences in Hippocampal-Dependent Learning and Transcriptome 72 samples shares c57, bl6
- GSE315893 Characterization of Subchronic Lung and Brain Consequences Caused by Mouse-Adapted SARS-CoV-2 and Influenza A Infection of C57BL6 mice 44 samples shares c57, bl6
- GSE306854 Exploring the sex and estrous cycle-dependent differences in microglia response to amyloid-beta pathology in female and male C57BL6/J (WT) and 5xFAD using bulk mRNAseq of isolated microglia. 24 samples shares c57, bl6
- GSE281686 Transcription factor occupancy is affected by genetic variation in the white adipose tissue of C57BL6/j and 129S1/SvImJ mice [RNA-seq] 24 samples shares c57, bl6
- GSE297835 Single Cell RNA Sequencing of C57BL6 mouse whole aortas after 8 weeks of L-NAME treatment 22 samples shares c57, bl6
- GSE226609 Mouse lung tissue RNA-Seq from C57Bl6 wild type and ALOX15 KO mice with and without house dust mite (HDM) exposure. 20 samples shares c57, bl6
- GSE228125 Effect of Hyperoxia Exposure on the Neonatal Lungs of WT C57BL6 and PTAFR KO C57BL6 mice 12 samples shares c57, bl6
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.