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Series GSE97919 Query DataSets for GSE97919
Status Public on Oct 11, 2017
Title Self-organized cerebral organoids with human specific features predict effective drugs to combat Zika virus infection [RNA-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary The human cerebral cortex possess distinct structural and functional features that are not found in the lower species traditionally used to model brain development and disease. Accordingly, considerable attention has been placed on the development of methods to direct pluripotency stem cells to form human brain-like structures termed organoids. However, many organoid differentiation protocols are inefficient and display marked variability in their ability to recapitulate the three-dimensional architecture and course of neurogenesis in the developing human brain. Here, we report optimized organoid culture methods that efficiently and reliably produce cortical and basal ganglia structures similar to those in the human fetal brain in vivo. Neurons within the organoids are functional and exhibit network-like activities. We further demonstrate the utility of the organoid system for modeling the teratogenic effects of Zika virus on the developing brain and identifying new candidate receptors and therapeutic compounds that can mitigate its desructive actions.
Overall design Human cerebral organoids were differenitated from H9. For ZIKV analyses, ~ 8W-old cortical organoids with mock or ZIKV infection (~MOI 1.67) after 3 days and 5 days of post infection were collected with 3 biological replicates (6 samples total). RNA samples were sent to the UCLA Clinical Microarray Core (CMC) and RNA integrity was confirmed with the Agilent 2100 bioanalyzer. The cDNA libraries were generated using the KAPA stranded mRNA-Seq kits (KAPA Biosystems) and sequenced by Illumina HiSeq 3000, yielding between 27 and 101 million reads per sample.
Contributor(s) Watanabe M, Buth JE, Vishlaghi N, de la Torre-Ubeita L, Taxidis J, Khakh B, Coppola G, Pearson CA, Yamauchi K, Gong D, Dai X, Damoiseaux R, Aliyari R, Liebscher S, Schenke-Layland K, Geschwind DH, Cheng G, Golshani P, Sun R, Novitch BG
Citation(s) 29020636
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 NS089817 Regulation of neural progenitor functions underlying cortical growth & complexity UNIVERSITY OF CALIFORNIA LOS ANGELES BENNETT G NOVITCH
Submission date Apr 18, 2017
Last update date Mar 07, 2023
Contact name Bennett Novitch
Phone 3107949339
Organization name University of California, Los Angeles
Department Department of Neurobiology
Lab Novitch Lab
Street address 650 Charles E Young Dr. S, CHS 66-200
City Los Angeles
State/province California
ZIP/Postal code 90095
Country USA
Platforms (1)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (12)
GSM2580319 3_Z12_d3_Control
GSM2580320 4_Z12_d3_Zika
GSM2580321 5_Z12_d5_Control
This SubSeries is part of SuperSeries:
GSE104279 Self-organized cerebral organoids with human specific features predict effective drugs to combat Zika virus infection
BioProject PRJNA383338
SRA SRP104155

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
GSE97919_RAW.tar 2.3 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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