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| Status |
Public on Nov 06, 2018 |
| Title |
10x Genomics Drop-seq single-cell RNA-seq of isolated Adult human spermatogonia, spermatocytes, spermatids & steady-state spermatogenic cells |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
To reveal distinct transcriptomes associated with various spermatogenic cells, including spermatogonial stem cells and all of their subsequent progeny, single-cell transcriptomes from Adult human spermatogonia, StaPut-enriched spermatocytes and spermatids, or unselected steady-state spermatogenic cells were used for Drop-Seq analysis. We used the 10x Genomics Chromium (Drop-Seq) to perform single-cell RNA-seq
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| Overall design |
Sorted Adult Human spermatogonia, three replicate preparations of steady-state unselected spermatogenic cells, and isolated adult spermatocytes and spermatids were used for this study. In one experiment, a 1:1 mixture of human and mouse steady-state spermatogenic cells were evaluated together to establish a multiplet rate. Data are from a total of 36,451 cells.
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| Contributor(s) |
Hermann BP, Cheng K, Singh A, Roa-de-la-Cruz L, Mutoji KN, Gildersleeve H, Chen I, Mayo M, Westernströer B, Law NC, Oatley MJ, Velte EK, Niedenberger BA, Fritze D, Silber S, Geyer CB, Oatley JM, McCarrey JR |
| Citation(s) |
30404016 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 HD090007 |
Origin and functional significance of the spermatogonial stem cell transcriptome barcode |
THE UNIVERSITY OF TEXAS AT SAN ANTONIO |
Brian Peter Hermann |
| R01 HD078679 |
Epimutations in Offspring Produced by Assisted Reproductive Technologies (ART) |
THE UNIVERSITY OF TEXAS AT SAN ANTONIO |
John R MCCARREY |
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| Submission date |
Jan 10, 2018 |
| Last update date |
Mar 26, 2019 |
| Contact name |
Brian P. Hermann |
| E-mail(s) |
Brian.Hermann@utsa.edu
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| Phone |
210-458-8047
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| Organization name |
University of Texas at San Antonio
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| Department |
Department of Biology
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| Street address |
1 UTSA Circle
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| City |
San Antonio |
| State/province |
TX |
| ZIP/Postal code |
78249 |
| Country |
USA |
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| Platforms (3) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL21290 |
Illumina HiSeq 3000 (Homo sapiens) |
| GPL24496 |
Illumina HiSeq 3000 (Homo sapiens; Mus musculus) |
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| Samples (11)
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| Relations |
| BioProject |
PRJNA429472 |
| SRA |
SRP128724 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE109037_AdultHuman-Spermatids_17-11_barcodes.tsv.gz |
17.9 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHuman-Spermatids_17-11_genes.tsv.gz |
258.6 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHuman-Spermatids_17-11_matrix.mtx.gz |
55.5 Mb |
(ftp)(http) |
MTX |
| GSE109037_AdultHuman-Spermatids_Reps1-2_barcodes.tsv.gz |
30.8 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHuman-Spermatids_Reps1-2_genes.tsv.gz |
258.6 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHuman-Spermatids_Reps1-2_matrix.mtx.gz |
96.1 Mb |
(ftp)(http) |
MTX |
| GSE109037_AdultHuman-Spermatocytes_17-11_barcodes.tsv.gz |
9.4 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHuman-Spermatocytes_17-11_genes.tsv.gz |
258.6 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHuman-Spermatocytes_17-11_matrix.mtx.gz |
36.0 Mb |
(ftp)(http) |
MTX |
| GSE109037_AdultHuman-Spermatocytes_Reps1-2_barcodes.tsv.gz |
21.0 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHuman-Spermatocytes_Reps1-2_genes.tsv.gz |
258.6 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHuman-Spermatocytes_Reps1-2_matrix.mtx.gz |
80.5 Mb |
(ftp)(http) |
MTX |
| GSE109037_AdultHumanSpermatogenesis-reps1-3_filtered_barcodes.tsv.gz |
30.7 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHumanSpermatogenesis-reps1-3_filteredgenes.tsv.gz |
258.6 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHumanSpermatogenesis-reps1-3_filteredmatrix.mtx.gz |
97.1 Mb |
(ftp)(http) |
MTX |
| GSE109037_AdultHumanSpermatogonia-reps1-3_filteredbarcodes.tsv.gz |
45.9 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHumanSpermatogonia-reps1-3_filteredgenes.tsv.gz |
258.6 Kb |
(ftp)(http) |
TSV |
| GSE109037_AdultHumanSpermatogonia-reps1-3_filteredmatrix.mtx.gz |
117.8 Mb |
(ftp)(http) |
MTX |
| GSE109037_RAW.tar |
338.2 Mb |
(http)(custom) |
TAR (of MTX, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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