|
| Status |
Public on Sep 09, 2015 |
| Title |
S_19 |
| Sample type |
SRA |
| |
|
| Source name |
Young Woman
|
| Organism |
Homo sapiens |
| Characteristics |
gender: Female
tissue: bone
age: young
|
| Extracted molecule |
total RNA |
| Extraction protocol |
we obtained small needle bone biopsies from the posterior iliac crest of all subjects using an 8G needle under local anesthesia
total RNA was isolated using the RNeasy Micro Kit (Qiagen, Valencia, CA) and treated with the Turbo DNA-freeTM Kit (Life Technologies, Grand Island, NY) to remove potential contaminating DNA that may lead to false-positive amplification
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
iliac crest needle biopsies
|
| Data processing |
Sequenced on an Illumina HiSeq 2000 using TruSeq SBS sequencing software (version 3) and SCS data collection software (version 1.4.8)
Base calling was performed using Illumina RTA (version 1.12.4.2)
Paired-end reads from the raw RNAseq data were aligned using TopHat (version 2.0.6)
Quality control assessments were made using RSeQC software
Gene counts were generated using HTSeq software and gene annotation files were obtained from Illumina
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include count values for each Sample.
|
| |
|
| Submission date |
Sep 08, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Sundeep Khosla |
| Organization name |
Mayo Clinic
|
| Department |
Endocrinology Research
|
| Street address |
200 1st St SW
|
| City |
Rochester |
| State/province |
MN |
| ZIP/Postal code |
55906 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE72815 |
Effects of Age and Estrogen on Skeletal Gene Expression in Humans as Assessed by RNA Sequencing |
|
| Relations |
| BioSample |
SAMN04041058 |
| SRA |
SRX1207756 |
