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Series GSE95601 Query DataSets for GSE95601
Status Public on Apr 14, 2017
Title Olfactory stem cell differentiation: horizontal basal cell (HBC) lineage
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The lineage of the horizontal basal cells (HBC) stem cells and other Sox2eGFP-positive cells from the olfactory epithelium were profiled by single-cell RNA-Seq to identify differentiated cells types, intermediate stages, transition states, and to infer the lineage trajectories.
Overall design Horizontal basal cell (HBC) stem cells from the olfactory epithelium that were either wild-type or mutant for the transcription factor Trp63/p63 were lineage traced, collected by FACS, and profiled by single-cell RNA-seq. Additionally, Sox2eGFP transgenic cells from the olfactory epithelium were combined with this data into one data set that was processed together. A minimum of two biological replicates were collected for each time-point/experimental condition. A total of 680 YFP-positive lineage traced cells plus 169 Sox2eGFP-positive cells were used in this analysis.
Contributor(s) Fletcher RB, Das D, Gadye L, Street KN, Baudhuin A, Wagner A, Cole MB, Flores Q, Choi YG, Yosef N, Purdom E, Dudoit S, Risso D, Ngai J
Citation(s) 28506465
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 DC007235 Programs of Gene Expression in Olfactory Neurogenesis UNIVERSITY OF CALIFORNIA BERKELEY JOHN J. NGAI
U01 MH105979 Classification of Cortical Neurons by Single Cell Transcriptomics UNIVERSITY OF CALIFORNIA BERKELEY JOHN J. NGAI
K01 AG045344 Age-related changes in the neural stem cells of the olfactory epithelium UNIVERSITY OF CALIFORNIA BERKELEY RUSSELL B FLETCHER
T32 HG000047 Genomics UNIVERSITY OF CALIFORNIA BERKELEY Daniel Soleyman Rokhsar
S10 RR027303 Illumina Sequencer to Facilitate Functional Genomics at Berkeley UNIVERSITY OF CALIFORNIA BERKELEY JOHN W. TAYLOR
Submission date Mar 02, 2017
Last update date May 15, 2019
Contact name Diya Das
Organization name University of California, Berkeley
Department Molecular & Cell Biology
Lab Ngai Lab
Street address 265 Life Sciences Addition #3200
City Berkeley
State/province California
ZIP/Postal code 94720
Country USA
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (849)
GSM2517054 GBCO04_N701_S513
GSM2517055 GBCO04_N701_S515
GSM2517056 GBCO04_N701_S516
BioProject PRJNA377622
SRA SRP100980

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE95601_oeHBCdiff_Cufflinks_eSet.Rda.gz 197.0 Mb (ftp)(http) RDA
GSE95601_oeHBCdiff_Cufflinks_eSet_counts_table.txt.gz 7.1 Mb (ftp)(http) TXT
GSE95601_oeHBCdiff_Cufflinks_eSet_featureData.txt.gz 335.9 Kb (ftp)(http) TXT
GSE95601_oeHBCdiff_Cufflinks_eSet_fpkm_table.txt.gz 29.8 Mb (ftp)(http) TXT
GSE95601_oeHBCdiff_Cufflinks_eSet_protocolData.txt.gz 50.0 Kb (ftp)(http) TXT
GSE95601_oeHBCdiff_Cufflinks_eSet_tpm_table.txt.gz 64.0 Mb (ftp)(http) TXT
GSE95601_oeHBCdiff_RSEM_eSet.Rda.gz 98.4 Mb (ftp)(http) RDA
GSE95601_oeHBCdiff_RSEM_eSet_expectedCounts_table.txt.gz 8.8 Mb (ftp)(http) TXT
GSE95601_oeHBCdiff_RSEM_eSet_fpkm_table.txt.gz 11.9 Mb (ftp)(http) TXT
GSE95601_oeHBCdiff_RSEM_eSet_protocolData.txt.gz 44.9 Kb (ftp)(http) TXT
GSE95601_oeHBCdiff_RSEM_eSet_tpm_table.txt.gz 11.8 Mb (ftp)(http) TXT
GSE95601_oeHBCdiff_kallisto_eSet.Rda.gz 164.1 Mb (ftp)(http) RDA
GSE95601_oeHBCdiff_kallisto_eSet_estimatedCounts_table.txt.gz 26.4 Mb (ftp)(http) TXT
GSE95601_oeHBCdiff_kallisto_eSet_tpm_table.txt.gz 32.7 Mb (ftp)(http) TXT
GSE95601_oeHBCdiff_phenoData.txt.gz 16.0 Kb (ftp)(http) TXT
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Processed data are available on Series record

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