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Series GSE144157 Query DataSets for GSE144157
Status Public on Apr 15, 2020
Title Variation of human neural stem cells generating organizer states in vitro before committing to cortical excitatory or inhibitory neuronal fates [human RNAseq #2]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Better understanding the progression of neural stem cells (NSCs) in the developing cerebral cortex is important for modeling neurogenesis and defining the pathogenesis of neuropsychiat-ric disorders. Here we used RNA-sequencing, cell imaging and lineage tracing of mouse and human in vitro NSCs to model the generation of cortical neuronal fates. We show that con-served signaling mechanisms regulate the acute transition from proliferative NSCs to commit-ted glutamatergic excitatory neurons. As human telencephalic NSCs developed from pluripo-tentcy in vitro, they first transitioned through organizer states that spatially pattern the cortex before generating glutamatergic precursor fates. NSCs derived from multiple human pluripotent lines varied in these early states leading differentially to dorsal or ventral telencephalic fates. This work furthers systematic analysis of the earliest patterning events that generate the major neuronal trajectories of the human telencephalon. The gene amplitudes for the GWCoGAPS patterns in this data can be found in the supplemental files.
Overall design Of the 3 series in this super series, this covers RNAseq of 2 replicate iPSC lines from each of 3 new donors during 8, 17, 30 and 32 days of neural differentiation (used in Figure 5)
Contributor(s) Micali N, Kim SK, Diaz-Bustamante M, Stein-O'Brien G, Seo S, Shin JH, Rash BG, Ma S, Wang Y, Olivares NA, Arellano J, Maynard KR, Fertig E, Cross AJ, Burli R, Brandon NJ, Weinberger DR, Chenoweth JG, Hoeppner DJ, Sestan N, Rakic P, Colantuoni C, McKay RD
Citation(s) 32375049
Submission date Jan 23, 2020
Last update date Jul 15, 2020
Contact name Carlo Colantuoni
Phone 4104931439
Organization name Johns Hopkins Univ. School of Medicine
Department Neurology
Street address 733 N Broadway
City Baltimore
State/province MD
ZIP/Postal code 21205
Country USA
Platforms (1)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (24)
GSM4282250 2053_2_XLSB_8_days
GSM4282251 2053_2_XLSB_17_days
GSM4282252 2053_2_XLSB_30_days
This SubSeries is part of SuperSeries:
GSE144159 Variation of human neural stem cells generating organizer states in vitro before committing to cortical excitatory or inhibitory neuronal fates
BioProject PRJNA602912
SRA SRP244392

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
GSE144157_RAW.tar 2.3 Mb (http)(custom) TAR (of TXT)
GSE144157_RPKMtable_BRNiPSCnpcNRN.txt.gz 1.3 Mb (ftp)(http) TXT
GSE144157_iPSC6lines_BRNiPSCnpcNRN_GWCoGAPS_p30.xlsx 7.0 Mb (ftp)(http) XLSX
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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