NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE254957 Query DataSets for GSE254957
Status Public on Feb 07, 2024
Title Glomerular voom-transformed RNAseq counts from the Neptune Cohort and healthy living donors [re-analysis of GSE197307]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Glomerular Transcriptome in the Nephrotic Syndrome study network cohort
 
Overall design Please note that GSE197307 samples were re-analyzed as described below.
Glomerular RNAseq profiles; Raw data (fastq) files are available upon approved ancillary study request from the NEPTUNE consortium (please see https://www.neptune-study.org/ancillary-studies; email contact: NEPTUNE-STUDY@umich.edu
*data processing step:
fastqScreen 0.11.4
cutadapt 1.14 -m 50 -A CTGTCTCTTATA -a CTGTCTCTTATA
STAR 2.5.2.a --bamRemoveDuplicatesType UniqueIdentical --twopassMode Basic --outFilterIntronMotifs RemoveNoncanonical --outSAMtype BAM SortedByCoordinate --outSAMstrandField intronMotif
htseq-count --stranded=no --order=pos --mode=union
genome build/assembly: GRCh 38.86
processed data files format and content: voom transformed data were batch corrected and trimmed to remove transcripts of no detectable abundance.
 
Contributor(s) Felix E, Sean E, Laura M, Rajasree M, Brad G, Matthias K
Citation(s) 36442540
Submission date Feb 02, 2024
Last update date Nov 04, 2024
Contact name Sean Eddy
E-mail(s) seaneddy@umich.edu
Organization name University of Michigan
Street address 1150 West Medical Center Drive
City Ann Arbor
State/province MI
ZIP/Postal code 48109
Country USA
 

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE254957_NEPTUNE_GSE197307_UpdatedCountData.txt.gz 10.8 Mb (ftp)(http) TXT
GSE254957_updatedMatrix.txt.gz 38.4 Mb (ftp)(http) TXT

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap