AMPK phosphorylates LMX1b to regulate a brainstem neurogenic network important for control of breathing in neonatal mice
RNA-seq (gene expression) · mouse · 15 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
- 15 samples: 5 conditions, mostly in triplicateGroups 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
- AMPK Phosphorylates LMX1b to Regulate a Brainstem Neurogenic Network Important for Control of Breathing in Neonatal MiceInternational journal of molecular sciences · 2024
Read the full summary ↓
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 GSE284418_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 PRJNA1198987 and SRA study SRP552300. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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.
- GSM8683869 WT AMPK 1 WT AMPK
- GSM8683870 WT AMPK 2 WT AMPK
- GSM8683871 WT AMPK 3 WT AMPK
- GSM8683872 KO AMPK 1 KO AMPK
- GSM8683873 KO AMPK 2 KO AMPK
- GSM8683874 KO AMPK 3 KO AMPK
- GSM8683875 WT LMX1B 1 WT LMX1B
- GSM8683876 WT LMX1B 2 WT LMX1B
- GSM8683877 WT LMX1B 3 WT LMX1B
- GSM8683878 HT LMX1B 1 HT LMX1B
- GSM8683879 HT LMX1B 2 HT LMX1B
- GSM8683880 HT LMX1B 3 HT LMX1B
- GSM8683881 KO LMX1B 1 KO LMX1B
- GSM8683882 KO LMX1B 2 KO LMX1B
- GSM8683883 KO LMX1B 3 KO LMX1B
- GSE292517 AMPK signaling is dysregulated in human tendinopathy and loss of AMPKα1 leads to cell, matrix and mechanical dysfunction in mouse Achilles tendon [RNAseq_AMPK_WheelRunning] 25 samples shares ampk, regulate
- GSE292357 AMPK signaling is dysregulated in human tendinopathy and loss of AMPKα1 leads to cell, matrix and mechanical dysfunction in mouse Achilles tendon 24 samples shares ampk, regulate
- GSE230258 Dorsomorphin (DM) inhibits AMPK, upregulates Wnt and Foxo genes and promotes activation of dormant follicles 12 samples shares ampk, regulate
- GSE255570 Chromatin remodeler CHD7 regulates neurogenic gene expression via controlling chromatin accessibility and modifications of histone marks H3K27me3 and H3K4me3 [Mouse RNA-seq] 4 samples shares neurogenic, regulate
- GSE255571 Chromatin remodeler CHD7 regulates neurogenic gene expression via controlling chromatin accessibility and modifications of histone marks H3K27me3 and H3K4me3 [Mouse CUT&Tag] 10 samples shares neurogenic, regulate
- GSE290022 Mechanism and cellular actions of the potent AMPK inhibitor BAY-3827 64 samples shares ampk
- GSE270826 AMPK promotes TFEB transcriptional activity through dephosphorylation at both mTORC1-dependent and -independent sites 48 samples shares ampk
- GSE249017 AMPK is necessary for Treg functional adaptation to microenvironmental stress during malignancy and viral pneumonia 41 samples shares ampk
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.