mRNA Sequencing of Ideopathic Pulmonary Fibrosis (IPF) and Control Samples from the Lung Tissue Research Consortium (LTRC)
RNA-seq (gene expression) · human · 39 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
- 39 samples
- 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.
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 GSE92592_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 PRJNA358081 and SRA study SRP095361. Searching any of these in the dataset finder brings you back here.
The grouping that defines any comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Sample titles run s_282634 … s_205028 and carry no group information.
- GSM2433098 s_282634
- GSM2433099 s_039545
- GSM2433100 s_111533
- GSM2433101 s_131648
- GSM2433102 s_254200
- GSM2433103 s_152649
- GSM2433104 s_133378
- GSM2433105 s_263234
- GSM2433106 s_133583
- GSM2433107 s_022562
- GSM2433108 s_258760
- GSM2433109 s_186024
- GSM2433110 s_102021
- GSM2433111 s_284489
- GSM2433112 s_059846
- GSM2433113 s_228552
- GSM2433114 s_137431
- GSM2433115 s_280263
- GSM2433116 s_149517
- GSM2433117 s_116004
- GSM2433118 s_191307
- GSM2433119 s_269070
- GSM2433120 s_164046
- GSM2433121 s_046027
- GSM2433122 s_058471
- GSM2433123 s_138327
- GSM2433124 s_074978
- GSM2433125 s_072042
- GSM2433126 s_221031
- GSM2433127 s_202617
- GSM2433128 s_098820
- GSM2433129 s_298223
- GSM2433130 s_020096
- GSM2433131 s_104702
- GSM2433132 s_089451
- GSM2433133 s_265639
- GSM2433134 s_280560
- GSM2433135 s_261982
- GSM2433136 s_205028
- GSE248485 Effects of Antifibrotic Drugs on Transcriptome of Peripheral Blood Mononuclear Cells in Idiopathic Pulmonary Fibrosis [IPF_PBMC] 18 samples shares ipf, pulmonary, fibrosis
- GSE310473 Targeting Fused in Sarcoma (FUS): A Novel Antisense Strategy for Treating Idiopathic Pulmonary Fibrosis [RNA-Seq IPF] 16 samples shares ipf, pulmonary, fibrosis
- GSE267943 Effect of knockdown of junctional genes JUP and PLEC on Small Airway Epithelial Cells (SAECs) in the context of epithelial desquamation in distal bronchioles of Idiopathic Pulmonary fibrosis (IPF) patients 12 samples shares ipf, pulmonary, fibrosis
- GSE282322 JUNB O-GlcNAcylation-mediated Promoter Accessibility of Metabolic Genes Modulates Distinct Epithelial Lineage in Pulmonary Fibrosis [ipf_saec_bulk] 24 samples shares ipf, pulmonary, fibrosis
- GSE276568 mRNA level comparison of control and IPF 10 samples shares ipf, control
- GSE286182 Single Nuclear RNAseq and MultiOme of IPF and Control Lung Tissue 75 samples shares ipf, control
- GSE53845 40 IPF patients and 8 healthy controls 48 samples shares ipf, control
- GSE47460 Gene expression profiling of chronic lung disease for the Lung Genomics Research Consortium 582 samples shares consortium, research
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.