Published April 21, 2020
| Version v1
Dataset
Open
RAW data: Knockdown of UTX/KDM6A Enriches Precursor Cell Populations in Urothelial Cell Cultures and Cell Lines - single cell RNAseq - Fastq format and UMI counts
Authors/Creators
- 1. Department of Cardiology, Pulmonology, and Vascular Medicine, Medical Faculty, Heinrich Heine University Düsseldorf, 40225 Düsseldorf, Germany
- 2. Department of Urology, Medical Faculty, Heinrich Heine University Düsseldorf, 40225 Düsseldorf, Germany
- 3. Genomics Transcriptomics Lab, Biomedical Research Center, Heinrich Heine University Düsseldorf, 40225 Düsseldorf, Germany
- 4. Chair for Molecular Physical Chemistry, Heinrich Heine University Düsseldorf, 40225 Düsseldorf, Germany
- 5. Department of Urolog, University of Ulm, Ulm, Germany
Description
This data set of the single cell sequencing experiment of the urothelial cell line HBLAK belongs to the publication: "Knockdown of UTX/KDM6A Enriches Precursor Cell Populations in Urothelial Cell Cultures and Cell Lines" Cancers 2020, 12(4), 1023; https://doi.org/10.3390/cancers12041023.
Notes
Material and Methods: "HBLAK cells were harvested by accutase after routine cultivation in T25 flasks for two days. Cell viability and cell number analysis were performed via trypan blue staining in a Neubauer counting chamber. A total of 20,000 cells were used as input for the single-cell droplet libraries generation on the 10× Chromium Controller system utilizing the Chromium Single Cell 3 Reagent Kit v3 according to manufacturer's instructions. Sequencing was carried out on a HiSeq 3000 system (Illumina Inc. San Diego, CA, USA) with a mean sequencing depth of ~40,000 reads/cell. Raw sequencing data were processed using the 10× Genomics CellRanger software (v3.1). Raw BCL-files were demultiplexed and processed to Fastq-files using the CellRanger mkfastq pipeline. Alignment of reads to the GRCh38 genome and UMI counting was performed via the CellRanger count pipeline to generate a gene-barcode matrix [filtered_feature_bc_matrix.zip]."
Files
filtered_feature_bc_matrix.zip
Files
(49.8 GB)
| Name | Size | |
|---|---|---|
|
md5:1937cf767fba803fcb988e90f0de1e4f
|
451.1 MB | Download |
|
md5:d3093f411f6a341ac233ba83a984570d
|
1.3 GB | Download |
|
md5:33758e5c9a9bd455fe0b1cbe4305ee7d
|
4.3 GB | Download |
|
md5:d56a69a1d137f386c5265a3d99be32aa
|
456.1 MB | Download |
|
md5:f46f77beb6a6dcca9a5184d2942c7ba5
|
1.4 GB | Download |
|
md5:7598674fde9a39258299b18b3948d933
|
4.4 GB | Download |
|
md5:cadd00ca3097382dcb0a3376a397ad94
|
454.4 MB | Download |
|
md5:177ab52d1b3882a43b4c45ed64088c91
|
1.4 GB | Download |
|
md5:ff6f66c3e39e3c51580c0681b93aa92e
|
4.4 GB | Download |
|
md5:7381c360bf80f70bb7043edb8847c6b9
|
451.0 MB | Download |
|
md5:0bc4e725970c1ed97cf6028849aa9b8b
|
1.3 GB | Download |
|
md5:e9b80eb4d7b536295811b9401e173d24
|
4.3 GB | Download |
|
md5:307232893f5bcdd5fb49de62a5cb2e1c
|
458.8 MB | Download |
|
md5:e3ac5dfbdfbc2bea035adda8f60f2db8
|
1.4 GB | Download |
|
md5:8410280c59bfe7f4d10fb444e683b284
|
4.4 GB | Download |
|
md5:b0600b2b57d3886b46d5caa53aecde21
|
460.2 MB | Download |
|
md5:2d3160e9465c88ead32885077e19171b
|
1.4 GB | Download |
|
md5:c59a0e11bef5eefdeabffb8ce062c4ab
|
4.5 GB | Download |
|
md5:621cef0095c85d07c18a92e0dbc4fe9b
|
457.8 MB | Download |
|
md5:430a6e5cefdbe1f294558bf4e0888230
|
1.4 GB | Download |
|
md5:a685b5dcf85d012bc612d283dcce4eb2
|
4.4 GB | Download |
|
md5:9233b2df83c7817b4d77b9ffbf8d6383
|
472.3 MB | Download |
|
md5:3e9db98588624830f227b25548176dea
|
1.4 GB | Download |
|
md5:da22a93cd17571611bf52d35b9426785
|
4.4 GB | Download |
|
md5:a4a113131a3b2d3819d5d66009fcbb9e
|
160.5 MB | Preview Download |
Additional details
Related works
- Is supplemented by
- Journal article: 10.3390/cancers12041023 (DOI)
References
- Lang, A.; Whongsiri, P.; Yilmaz, M.; Lautwein, T.; Petzsch, P.; Greife, A.; Günes, C.; Köhrer, K.; Niegisch, G.; Hoffmann, M.; Schulz, W.A. Knockdown of UTX/KDM6A Enriches Precursor Cell Populations in Urothelial Cell Cultures and Cell Lines. Cancers 2020, 12, 1023.