|
| Status |
Public on Dec 31, 2015 |
| Title |
p03_92 |
| Sample type |
SRA |
| |
|
| Source name |
embryo
|
| Organism |
Mus musculus |
| Characteristics |
development stage: M
strain: FVB
diet of males: Low Protein
|
| Growth protocol |
Zygote were generated by IVF using sperm from mice fed control diet or Low protein diet and oocytes from females on control diet.The embryos were then allowed to develop iin KSOM media until different developmental stages when they were collected and frozen at -80C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Embryos were collected in 5ul of buffer TCL with 1% beta mercaptoethanol and frozen at -80C.
single-cell RNA-seq/Nextera kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Reads were aligned to mm10 RefSeq using Bowtie software in a sequencial manner first to rRNA, snRNA and miRNAs to eliminate any reads coming from them and then alinged to the genome
Genome_build: mm10
Supplementary_files_format_and_content: excel sheet with normalized gene counts
|
| |
|
| Submission date |
Dec 10, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Upasna Sharma |
| E-mail(s) |
FNU.Upasna@umassmed.edu
|
| Phone |
508 856 6337
|
| Organization name |
Umass Med School
|
| Department |
BMP
|
| Lab |
LRB
|
| Street address |
364 Plantation Street
|
| City |
Worcester |
| State/province |
MA |
| ZIP/Postal code |
01605 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (2) |
| GSE75622 |
Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals |
| GSE75902 |
Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals (IVF) |
|
| Relations |
| BioSample |
SAMN04330783 |
| SRA |
SRX1476128 |
