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| Status |
Public on Dec 15, 2018 |
| Title |
BetaGFP_pseudoisletsL |
| Sample type |
SRA |
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| Source name |
pancreas
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| Organism |
Homo sapiens |
| Characteristics |
cell-type: Beta-cellsp
protocol: 1 week cultured
transduction: GFP
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| Treatment protocol |
Pseudoislets (?GFP, ?PM or BetaGFP) and graft (?PM) were dissociated into single-cells, and single, viable and GFP+ cells were sorted on a Moflo Astrios (Beckman Coulter) system. n an
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| Extracted molecule |
total RNA |
| Extraction protocol |
Single-cell capture and extraction procedures were performed using the Chromium Controller (10xGenomics) and the Single Cell 3? Library Kit v2 (PN-120236, PN-120237, PN-120262) according to manufacture's instructions.
The cDNA libraries were constructed using the Single Cell 3? Library Kit v2 (PN-120236, PN-120237, PN-120262) according to the manufacture's protocol.2
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
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| Data processing |
The Cell Ranger software pipeline (ver.2.1, 10xGenomics) was used to demultiplex cellular barcodes, map reads to the transcriptome using the STAR aligner to produce a sparse cell/gene matrix.
This is a 10xGenomics scRNA-seq data, so our data include the paired-end Read 1 (containing the 16 bp 10x Barcode and 10 bpUMI) and Read 2 (used to sequence the cDNA fragment) and the sample index in the i7 index read.
Genome_build: hg38
Supplementary_files_format_and_content: tab-delimited text files include raw counts of sequencing reads for each sample
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| Submission date |
Dec 14, 2018 |
| Last update date |
Dec 16, 2018 |
| Contact name |
Kenichiro Furuyama |
| E-mail(s) |
kenichiro.furuyama@unige.ch
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| Phone |
+41 22 379 5223
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| Organization name |
University of Geneva
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| Department |
Genetic Medicine and Development
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| Lab |
Pedro Herrera
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| Street address |
1, rue Michel-Servet
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| City |
Geneva |
| State/province |
Geneva |
| ZIP/Postal code |
CH1211 |
| Country |
Switzerland |
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| Platform ID |
GPL20301 |
| Series (1) |
| GSE123844 |
Diabetes Remission Using Glucose-Responsive Insulin-Producing Human alpha-Cells |
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| Relations |
| BioSample |
SAMN10593390 |
| SRA |
SRX5131549 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3513970_Aggregates_b_bG.txt.gz |
995.6 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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