An axonal guidance cue Semaphorin 6D orchestrates systemic metabolism and myelopoiesis through tuning sympathetic innervation
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: 24 samples, each with a distinct title — no replicated groupsGroups 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
- Semaphorin 6D tunes amygdalar circuits for emotional, metabolic, and inflammatory outputsNeuron · 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 GSE195825_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 PRJNA802225 and SRA study SRP357598. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 24 sample titles: 24 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.
- GSM5851411 WT_CD_2_HSC
- GSM5851412 WT_CD_3_HSC
- GSM5851413 WT_CD_4_HSC
- GSM5851414 WT_HFD_1_HSC
- GSM5851415 WT_HFD_4_HSC
- GSM5851416 WT_HFD_5_HSC
- GSM5851417 KO_CD_1_HSC
- GSM5851418 KO_CD_2_HSC
- GSM5851419 KO_CD_4_HSC
- GSM5851420 KO_HFD_2_HSC
- GSM5851421 KO_HFD_3_HSC
- GSM5851422 KO_HFD_4_HSC
- GSM5851423 WT_CD_2_MPP
- GSM5851424 WT_CD_3_MPP
- GSM5851425 WT_CD_4_MPP
- GSM5851426 WT_HFD_1_MPP
- GSM5851427 WT_HFD_4_MPP
- GSM5851428 WT_HFD_5_MPP
- GSM5851429 KO_CD_1_MPP
- GSM5851430 KO_CD_2_MPP
- GSM5851431 KO_CD_4_MPP
- GSM5851432 KO_HFD_2_MPP
- GSM5851433 KO_HFD_3_MPP
- GSM5851434 KO_HFD_4_MPP
- GSE201216 An axonal guidance cue Semaphorin 6D orchestrates systemic metabolism and myelopoiesis through tuning sympathetic innervation (epididymal white adipose tissue) 12 samples shares orchestrates, myelopoiesis, sympathetic, innervation, semaphorin, guidance, systemic, axonal
- GSE298456 Innervation and cargo-specific axonal transport impairments in FUS-ALS mice with gain and loss of function [RNA-seq] 27 samples shares innervation, axonal
- GSE298457 Innervation and cargo-specific axonal transport impairments in FUS-ALS mice with gain and loss of function [RiboTag] 20 samples shares innervation, axonal
- GSE336756 Compartmentalisation of m6A (N6-methyladenosine) methylated RNA in somatic or axonal subcellular locations is dependent on Nerve Growth Factor (NGF) state in sympathetic neurons [Axon-meRIP-seq] 32 samples shares sympathetic, axonal
- GSE237201 ROCK1 orchestrates B cell differentiation in response to PAMPs and heme by controlling the heme-regulated proteins Bach2 and HRI 48 samples shares orchestrates
- GSE286424 A key role of PIEZO2 mechanosensitive ion channel in adipose sensory innervation [bulk RNA-seq] 46 samples shares innervation
- GSE255061 Phosphatase-independent activity of smooth-muscle calcineurin orchestrates a gene expression program leading to arterial hypertension 40 samples shares orchestrates
- GSE326648 Sexual dimorphism shapes AAK trajectory in Pax6 deficiency mouse model with early immune activation, impaired innervation, and altered tears 40 samples shares innervation
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.