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Series GSE115480 Query DataSets for GSE115480
Status Public on Jan 07, 2019
Title Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary To compare the RNAs present in dendrites and somas of individual neurons, we manually separated the dendrites and soma of primary mouse hippocampal neurons using a micropipette and performed RNA-sequencing on each subcellular fraction such that we obtained the subcellular transcriptomes of the same cell.
 
Overall design 16 individual neurons were collected and dissected (yielding a total of 32 soma and dendrite samples) from multiple cultures across multiple days. ERCC spike-in control RNA was added to each sample.
 
Contributor(s) Middleton SA, Eberwine J, Kim J
Citation(s) 30678683
NIH grant(s)
Grant ID Grant title Affiliation Name
U01 MH098953 Role of Single Cell mRNA Variation in Systems Associated Electrically Excitable C UNIVERSITY OF PENNSYLVANIA JUNHYONG KIM
R01 GM110005 In vivo translational analysis in neurons UNIVERSITY OF PENNSYLVANIA JAMES H. EBERWINE
Submission date Jun 07, 2018
Last update date Mar 25, 2019
Contact name Junhyong Kim
Organization name University of Pennsylvania
Department Biology
Lab Junhyong Kim
Street address 433 S University Avenue
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (32)
GSM3178932 Sample_B1D, hippocampal neuron
GSM3178933 Sample_B1S, hippocampal neuron
GSM3178934 Sample_B2D, hippocampal neuron
Relations
BioProject PRJNA475141
SRA SRP150011

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
GSE115480_RAW.tar 2.7 Mb (http)(custom) TAR (of TXT)
GSE115480_combined_3utr_counts_per_gene.txt.gz 798.9 Kb (ftp)(http) TXT
GSE115480_individual_3utr_counts.txt.gz 1.1 Mb (ftp)(http) 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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