|
| Status |
Public on Dec 27, 2023 |
| Title |
LN_FRC_D14_1 |
| Sample type |
SRA |
| |
|
| Source name |
Lymph Node
|
| Organism |
Mus musculus |
| Characteristics |
cell subtype: LN_FRC
age: D14
tissue: Lymph Node
strain: B6
cell type: Fibroblastic reticular cells
genotype: WT
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For freshly-isolated samples, 500-1000 cells were double-sorted into 5ul TCL buffer (Qiagen) containing 1% 2-mercaptoethanol (Sigma-Aldrich). Library construction and sequencing and data processing were performed according to the standard Immunological Genome Project protocols (https://www.immgen.org/img/Protocols/ImmGenULI_RNAseq_methods.pdf).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
FRC.LN.D14#1
|
| Data processing |
Reads were mapped to the mouse reference genome (mm10) with STAR 2.7.3a
Non-uniquely mapped reads were discarded.
The uniquely mapped reads were assigned to genes using featureCounts with GENCODE annotation (vM25)
Assembly: mm10
Supplementary files format and content: tab-delimited text files include raw read counts for each Sample
|
| |
|
| Submission date |
Oct 05, 2023 |
| Last update date |
Dec 27, 2023 |
| Contact name |
CBDM Lab |
| E-mail(s) |
cbdm@hms.harvard.edu
|
| Phone |
617-432-7747
|
| Organization name |
Harvard Medical School
|
| Department |
Microbiology and Immunobiology
|
| Lab |
CBDM
|
| Street address |
77 Avenue Louis Pasteur
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE244741 |
Lymph Node Stromal Cell Responses to Perinatal T Cell Waves, A Temporal Atlas [bulkRNA-Seq] |
| GSE244743 |
Lymph Node Stromal Cell Responses to Perinatal T Cell Waves, A Temporal Atlas |
|
| Relations |
| BioSample |
SAMN37695084 |
| SRA |
SRX22001182 |
