|
| Status |
Public on Dec 03, 2014 |
| Title |
mon_day7-2 |
| Sample type |
SRA |
| |
|
| Source name |
Monocyte cells sorted from spinal cord of injured mice
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
organ: Spinal cord
selection marker: Time following spinal cord injury
treatment: spinal cord injury
time: 7 days
|
| Treatment protocol |
The spinal cords of deeply anesthetized mice were exposed by laminectomy at T12, and contusive (200 kdynes) centralized injury was performed using the Infinite Horizon spinal cord impactor (Precision Systems)
|
| Growth protocol |
In vivo-sorted cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
miRNeasy (Qiagen)
see Jaitin et. al., Science 2014
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Description |
INVIVO.xlsx
|
| Data processing |
Illumina Casava1.8 software used for basecalling.
alignment: tophat with deafult parameters
Expression table done using ESAT http://garberlab.umassmed.edu/software/esat/
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include mRNA molecule count values for each Sample
|
| |
|
| Submission date |
Oct 24, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Ido Amit |
| E-mail(s) |
ido.amit@weizmann.ac.il
|
| Phone |
972-8-9343338
|
| Organization name |
Weizmann Institute of Science
|
| Department |
Immunology
|
| Street address |
234 Herzl st.
|
| City |
Rehovot |
| ZIP/Postal code |
760001 |
| Country |
Israel |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE62698 |
Spinal cord injury (RNA sequencing data) |
|
| Relations |
| BioSample |
SAMN03142868 |
| SRA |
SRX742751 |
