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Series GSE99795 Query DataSets for GSE99795
Status Public on Mar 02, 2018
Title Single-cell RNA-seq reveals a subpopulation of prostate cancer cells with enhanced cell cycle-related transcription and attenuated androgen response
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Increasing evidence indicates that minor subpopulations intrinsic to androgen-independence are present in prostate cancer cells, poised to become clonal dominance under prolonged androgen-deprivation selection. To stratify different subpopulations, we conduct transcriptome profiling of 144 single LNCaP prostate cancer cells treated and untreated with androgen after cell cycle synchronization. At least eight subpopulations of LNCaP cells are identified, revealing a previously unappreciable level of cellular heterogeneity to androgen stimulation. One subpopulation displays stem-like features, the advanced growth of which depends more on enhanced expression of 10 cell cycle-related genes and less on androgen-dependent signaling. Concordant upregulation of these genes appears to be linked to recurrent prostate cancers and can be used for early detection of tumors that subsequently develop androgen independence. Moreover, this single-cell approach provides a better understanding of how cancer cells respond heterogeneously to androgen-deprivation therapies and to reveal which subpopulations are resistant to this treatment.
 
Overall design For each of 3 treatment groups, forty eight LNCaP single cells and 1 representative bulk cell RNA sample (1ng) were collected for SMART-seq2 amplification and later single-cell RNA-seq (total 144 single cells and 3 bulk cell samples). All of the treatment groups were harvested from after synchronizing the cells at the G1/S phase with a double thymidine block and androgen depriving the cells for ~24 hours. Treatment groups 2 and 3 were cultured in the absence and presence of androgen (1 nM R1881) for 12 hours, respectively. Treatment group 1 was a baseline comparison treatment group and was collected right after cell synchronization and androgen deprivation (considered 0 hour).
 
Contributor(s) Horning AM, Wang Y
Citation(s) 29233929
Submission date Jun 07, 2017
Last update date May 15, 2019
Contact name Tim Hui-Miing Huang
E-mail(s) huangt3@uthscsa.edu
Phone 210-450-0025
Organization name University of Texas Health San Antonio
Department Molecular Medicine
Street address 8403 Floyd Curl Dr.
City San Antonio
State/province TX
ZIP/Postal code 78229
Country USA
 
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (147)
GSM2652441 0 hour untreated cell 1 [Sample_1_1]
GSM2652442 0 hour untreated cell 2 [Sample_1_2]
GSM2652443 0 hour untreated cell 3 [Sample_1_3]
Relations
BioProject PRJNA389624
SRA SRP108807

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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
GSE99795_raw.txt.gz 7.7 Mb (ftp)(http) TXT
GSE99795_results_de12_pvalues_beganwithGeneNames.txt.gz 3.6 Kb (ftp)(http) TXT
GSE99795_results_de13_pvalues_beganwithGeneNames.txt.gz 6.8 Kb (ftp)(http) TXT
GSE99795_results_de23_pvalues_beganwithGeneNames.txt.gz 6.6 Kb (ftp)(http) TXT
GSE99795_rpkm.txt.gz 11.9 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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