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| Status |
Public on May 04, 2022 |
| Title |
Multiplexed single cell mRNA sequencing of monolayer- and organoid-system differentiated cells derived from human iPSC with and without NKX2-5 genetic manipulations |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Three wild type cell lines (WTC:ACTN2-eGFP, WTC:Myl2-eGFP, SCVI114) and three genetically modified cell lines (PM28, PM52, Del33) were differentiated using two monolayer (atrial and ventricular) and two organoid (also atrial and ventricular) differentiation protocols. Cells from multiple samples at differentiation day 15 (wild type cell lines) and day 30 (all cell lines) were isolated, multiplexed using the MULTI-seq approach; subsequently library preparation (10X platform) and sequencing was performed.
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| |
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| Overall design |
Single cell sequencing of wild type and Nkx2-5 genetically modified hiPSC derived cells using monolayer and organoid systems at day15 and day30
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| |
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| Contributor(s) |
Li G, Feng W, Schriever H, Bais A, Kostka D |
| Citation(s) |
35488063 |
| |
| Submission date |
Dec 21, 2020 |
| Last update date |
May 04, 2022 |
| Contact name |
Dennis Kostka |
| E-mail(s) |
kostka@pitt.edu
|
| Organization name |
University of Pittsburgh
|
| Department |
Developmental Biology
|
| Street address |
530 45TH ST
|
| City |
Pittsburgh |
| State/province |
PA |
| ZIP/Postal code |
15201 |
| Country |
USA |
| |
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| Platforms (1) |
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| Samples (3) |
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| Relations |
| BioProject |
PRJNA686955 |
| SRA |
SRP299193 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE163619_GEO_FACs-sorted_barcodes.txt.gz |
16.1 Kb |
(ftp)(http) |
TXT |
| GSE163619_GEO_FACs-sorted_counts.mtx.gz |
33.8 Mb |
(ftp)(http) |
MTX |
| GSE163619_GEO_FACs-sorted_genes.txt.gz |
65.8 Kb |
(ftp)(http) |
TXT |
| GSE163619_GEO_FACs-sorted_log-norm_counts.mtx.gz |
41.3 Mb |
(ftp)(http) |
MTX |
| GSE163619_GEO_FACs-sorted_metadata.csv.gz |
22.9 Kb |
(ftp)(http) |
CSV |
| GSE163619_GEO_unsorted_barcodes.txt.gz |
116.0 Kb |
(ftp)(http) |
TXT |
| GSE163619_GEO_unsorted_counts.mtx.gz |
194.8 Mb |
(ftp)(http) |
MTX |
| GSE163619_GEO_unsorted_genes.txt.gz |
47.2 Kb |
(ftp)(http) |
TXT |
| GSE163619_GEO_unsorted_log-norm_counts.mtx.gz |
236.6 Mb |
(ftp)(http) |
MTX |
| GSE163619_GEO_unsorted_metadata.csv.gz |
192.2 Kb |
(ftp)(http) |
CSV |
| GSE163619_facs_filtered_feature_bc_matrix.h5 |
23.9 Mb |
(ftp)(http) |
H5 |
| GSE163619_multiSeqBarcodes_to_samples.xlsx |
11.2 Kb |
(ftp)(http) |
XLSX |
| GSE163619_unsorted1_filtered_feature_bc_matrix.h5 |
86.4 Mb |
(ftp)(http) |
H5 |
| GSE163619_unsorted2_filtered_feature_bc_matrix.h5 |
90.3 Mb |
(ftp)(http) |
H5 |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
