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| Status |
Public on Jun 29, 2020 |
| Title |
Single cell RNA-seq analysis on human endometrium across the natural menstrual cycle |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
To unbiasedly and systematically characterize endometrial transformation across the human menstrual cycle in preparation for embryo implantation, we analyzed the transcriptomic transformation of human endometrium at single cell resolution, dissecting multidimensional cellular heterogeneity of the tissue across the entire natural menstrual cycle.
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| Overall design |
We collected single cell transcriptome profile of endometrium biopsies sampled from 19 healthy and fertile females, at 4-27 days of their menstrual cycle.
[10x dataset] - collected to validate main findings drawn from the original C1 dataset of this study. In this dataset, we collected additional data from 10 endometrial biopsies using the 10x Chromium system. Importantly, we collected both C1 and 10x data for two biopsies, one from mid-secretory phase and the other early-secretory. They served as anchors for a direct comparison between the two datasets, and were referred as ?anchor biopsies? in the manuscript of this study. Biopsies in the 10x dataset were obtained following the same protocol used for the C1 dataset, as described in the manuscript.
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| Contributor(s) |
Wang W, Isakova A, Vilella F, Alama P, Moreno I, Pan W, Simon C, Quake SR |
| Citation(s) |
32929266, 34329437 |
| Submission date |
Mar 17, 2018 |
| Last update date |
Sep 08, 2021 |
| Contact name |
Wanxin Wang |
| E-mail(s) |
wanxinw@stanford.edu
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| Phone |
4134373134
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| Organization name |
Stanford Univeristy
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| Lab |
Wanxin Wang
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| Street address |
James H Clark Center, 318 Campus Drive, room E300
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| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (2) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (2158)
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| Relations |
| BioProject |
PRJNA438770 |
| SRA |
SRP135922 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE111976_README.txt |
1.3 Kb |
(ftp)(http) |
TXT |
| GSE111976_ct.csv.gz |
12.1 Mb |
(ftp)(http) |
CSV |
| GSE111976_ct_endo_10x.rds.gz |
408.3 Mb |
(ftp)(http) |
RDS |
| GSE111976_summary_10x_day_donor_ctype.csv.gz |
579.5 Kb |
(ftp)(http) |
CSV |
| GSE111976_summary_10x_donor_phase.csv.gz |
159 b |
(ftp)(http) |
CSV |
| GSE111976_summary_C1_day_donor_ctype.csv.gz |
16.9 Kb |
(ftp)(http) |
CSV |
| GSE111976_summary_C1_donor_phase.csv.gz |
253 b |
(ftp)(http) |
CSV |
| GSE111976_umap_endo_10x.csv.gz |
1.1 Mb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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