GSE201898

GSE GEO

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MECP2-related pathways are dysregulated in a cortical organoid model of Myotonic dystrophy

Organism: Homo sapiens

Platform: GPL16791

Samples: 53

Experiment Types:

Expression profiling by high throughput sequencing Other

Submitted: Apr 29 2022

Last Updated: Jul 01 2022

Status: Public on Jun 30 2022

Contact: Gene,,Yeo (UCSD)

Relations

SuperSeries of: GSE201891 SuperSeries of: GSE201895 SuperSeries of: GSE201897 BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA833427

Summary

This SuperSeries is composed of the SubSeries listed below.

Overall Design

Refer to individual Series

Analysis (3 steps)

View Data Processing

Processing steps for GSE201898

Alignment, cell barcode processing, umis processing, abundance measurements: cellranger count (version 3.0.2)
MD tags were added to alignments with samtools calmd --threads 15 -rb possorted_genome_bam.bam refdata-cellranger-hg19-3.0.0/fasta/genome.fa > possorted_genome_bam_MD.bam
Reads were split based on the CB:Z tag, resulting in one BAM file per barcode.

Supplementary Files (1)

GSE201898_RAW.tar Download

GEO Samples (53)

GSM6077644 GSM6077645 GSM6077646 GSM6077647 GSM6077648 GSM6077692 GSM6077693 GSM6077694 GSM6077695 GSM6077696 GSM6077697 GSM6077698 GSM6077699 GSM6077700 GSM6077701 GSM6077702 GSM6077703 GSM6077704 GSM6077705 GSM6077706 GSM6077707 GSM6077714 GSM6077715 GSM6077716 GSM6077717 GSM6077718 GSM6077719 GSM6077720 GSM6077721 GSM6077722 GSM6077723 GSM6077724 GSM6077725 GSM6077726 GSM6077727 GSM6077728 GSM6077729 GSM6077730 GSM6077731 GSM6077732 GSM6077733 GSM6077734 GSM6077735 GSM6077736 GSM6077737 GSM6077738 GSM6077739 GSM6077740 GSM6077741 GSM6077742 GSM6077743 GSM6077744 GSM6077745

Dataset Citations (1)

PMID 35767654 · 2022 · Science translational medicine

Kathryn H Morelli, Wenhao Jin, Shashank Shathe, Assael A Madrigal, Krysten L Jones, Joshua L Schwartz, Tristan Bridges, Jasmine R Mueller, Archana Shankar, Isaac A Chaim, John W Day, Gene W Yeo

Linked Publications (2)

Science translational medicine · 2022