|
| Status |
Public on Dec 04, 2017 |
| Title |
Liver_Female2_1705sTS |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Anolis carolinensis |
| Characteristics |
Sex: Female
Stage: Adult
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The DNA was purified using Qiaquick PCR Purification columns (Qiagen) according to manufacturer’s instructions.
SMARTer Ultra Low Input RNA kit
DNA-Seq
RNA-Seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
genomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
cDNA
|
| Data processing |
Basecalls performed using CASAVA version 1.8.
DNA-Seq reads were aligned to the AnoCar2.0 genome assembly using bowtie v2.2.8 with default parameters.
PCR duplicates and reads mapping to multiple genome positions were filered out from the alignments.
Genome_build: RNA-Seq reads were aligned to the AnoCar2.0 genome assembly using HISATv2.0.4
Genome_build: AnoCar2.0
Supplementary_files_format_and_content: VCF files were produced using bcftools v1.3.1
|
| |
|
| Submission date |
Dec 01, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Diego Cortez |
| E-mail(s) |
diegoclaudio.cortezquezada@unil.ch
|
| Organization name |
Univerity of Lausanne - CIG
|
| Street address |
Rue de Lausanne
|
| City |
Lausanne |
| ZIP/Postal code |
1015 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL23252 |
| Series (1) |
| GSE107602 |
BioProject PRJNA381064: Convergent origination of a Drosophila-like dosage compensation mechanism in a reptile lineage (Allelic Gene Expression in Anolis carolinensis, bulk tissue RNA-seq) |
|
| Relations |
| Reanalysis of |
GSM2563024 |
| BioSample |
SAMN08118511 |
| SRA |
SRX3436883 |
