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Sample GSM1656738 Query DataSets for GSM1656738
Status Public on Feb 19, 2016
Title Mbnl1KOCorticalNeuronsNeurite1
Sample type SRA
Source name Mbnl1 KO E18.5 cortical neurons neurite
Organism Mus musculus
Characteristics cell type: E18.5 cortical neurons
compartment: neurite
genotype: Mbnl1 KO
Extracted molecule polyA RNA
Extraction protocol Cells were fractionated using porous membranes into soma and neurite fractions.
For all N2A and CAD samples, libraries were prepared using the standard "dUTP" strand-specific method. For cortical neuron samples, libraries were prepared using the Clontech Low Input Kit.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
Description Mbnl1 KO cortical neurons neurite Rep1
Data processing Reads were aligned to the mm9 genome using either Tophat version 2.0.12 or STAR 2.0.4d
Expression values were calculated using Cufflinks version 2.1.1
Alternative isoform abundances were calculated using MISO
Genome_build: mm9 supplemented with alternative isoforms identified in Merkin et al (Science) 2012
Submission date Apr 13, 2015
Last update date May 15, 2019
Contact name Matthew Taliaferro
Organization name University of Colorado Anschutz Medical Campus
Department Biology
Street address 12801 E 17th Ave, RC1 South Room 10403D
City Aurora
State/province CO
ZIP/Postal code 80045
Country USA
Platform ID GPL19057
Series (1)
GSE67828 Profiling of soma and neurite transcriptomes
BioSample SAMN03481303
SRA SRX993483

Supplementary file Size Download File type/resource
GSM1656738_Mbnl1Axon1_fpkm.txt.gz 1.4 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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