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Series GSE159290 Query DataSets for GSE159290
Status Public on Oct 13, 2021
Title A comparison of alternative mRNA splicing in the CD4 and CD8 T cell lineages
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We consturcted a full-length transcript reference of CD4SP and CD8SP T cells using TGS (PacBio) data. We then used SGS (Illumina) CD4SP and CD8SP data to quantify isoform expressions and study alternative splicing patterns against the full-length transcript reference between CD4SP and CD8SP cells.
Overall design Constructed full-length trasncript reference and analysed alternative splicing events in CD4SP and CD8SP T cells with TGS (PacBio) long-read and SGS (Illumina) short-read data. PacBio long-read and Illumina short-read libraries were constructed for CD4SP and CD8SP cells.
Contributor(s) Chong MM
Citation(s) 33631555
Submission date Oct 09, 2020
Last update date Oct 15, 2021
Contact name Mark Chong
Phone 61-3-92313444
Organization name St Vincent's Institute of Medical Research
Street address 9 Princes Street
City Fitzroy
State/province Victoria
ZIP/Postal code 3065
Country Australia
Platforms (2)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24198 Sequel (Mus musculus)
Samples (10)
GSM4826097 CD4SP long-read [CD4SP_CCS]
GSM4826098 CD8SP long-read [CD8SP_CCS]
GSM4826099 CD4SP short-read [CD4SP_L001]
BioProject PRJNA668300
SRA SRP286871

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
GSE159290_CD4SP_transcripts.gtf.gz 37.4 Mb (ftp)(http) GTF
GSE159290_CD8SP_transcripts.gtf.gz 35.5 Mb (ftp)(http) GTF
GSE159290_Chained_TPM.txt.gz 48.1 Kb (ftp)(http) TXT
GSE159290_RAW.tar 580.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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