|
| Status |
Public on Jan 06, 2021 |
| Title |
run2_CC4532_Fe_pos |
| Sample type |
SRA |
| |
|
| Source name |
run2 cell wall Fe+
|
| Organism |
Chlamydomonas reinhardtii |
| Characteristics |
tissue: Cultured Chlamydomonas cells
|
| Growth protocol |
We used the Chlamydomonas reinhardtii strains CC-5390 (cw15 arg7-8::ARG7 MT+) and CC-4532 (CW MT-), which we procured from laboratory stocks. We grew all pre-cultures in Tris Acetate Phosphate (TAP) medium supplemented with micronutrients at 24 ºC in constant light (~50 µmol/m2/s) and under constant agitation (180 rpm) in an Innova-44R incubator.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Single-cell RNAseq libraries were prepared by using the Chromium single cell 3′ library and gel bead kit v3 (10x Genomics).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Libraries were sequenced by Illumina NextSeq500 and NovaSeq Sequencing System.
fastq files were generated using Cellranger mkfastq (version 3.0.2). The raw reads were mapped to the Chlamydomonas reference genome (Chlamydomonas reinhardtii v5.5) using cellranger count.
Multiple samples were aggregated by cellranger aggr.
Genome_build: Chlamydomonas reinhardtii v5.5
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every cell
|
| |
|
| Submission date |
Sep 07, 2020 |
| Last update date |
Jan 07, 2021 |
| Contact name |
Feiyang Ma |
| Organization name |
UCLA
|
| Department |
Molecular Biology Institute
|
| Lab |
Pellegrini Lab
|
| Street address |
610, Charles Young Dr East, TLSB 3000C
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL29113 |
| Series (1) |
| GSE157580 |
Single-Cell RNA Sequencing of Batch Chlamydomonas Cultures Reveals their Heterogeneity and Place Along the Diurnal Cycle |
|
| Relations |
| BioSample |
SAMN16073623 |
| SRA |
SRX9087742 |
