|
| Status |
Public on Sep 06, 2024 |
| Title |
K2 |
| Sample type |
SRA |
| |
|
| Source name |
15-18h Embryonic tissue
|
| Organism |
Aedes aegypti |
| Characteristics |
tissue: 15-18h Embryonic tissue
strain: K2
Sex: pooled male and female
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The proximally-ligated DNA is prepared with Arima-HiC+ for High Coverage kit (Arima Genomics)
Libraries are prepared with Arima-HiC+ for High Coverage kit (Arima Genomics)
|
| |
|
| Library strategy |
Hi-C |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
The sequence quality assessment was performed using FastQC software v.0.12.1
Juicer Pipeline was used to build the contact matrices and Hi-C heatmaps
Assembly: AaegL5
Supplementary files format and content: hic files include contact meatices and Hi-C heatmaps
Supplementary files format and content: text files include experiment description for hic files
|
| |
|
| Submission date |
Sep 12, 2023 |
| Last update date |
Sep 06, 2024 |
| Contact name |
Maria Sharakhova |
| Organization name |
Virginia polytechnic institute and state university
|
| Department |
Entomology
|
| Street address |
360 West Campus Drive
|
| City |
Blacksburg |
| State/province |
VIRGINIA |
| ZIP/Postal code |
24061 |
| Country |
USA |
| |
|
| Platform ID |
GPL26709 |
| Series (1) |
| GSE243024 |
Discovery of chromosomal inversions in the mosquito Aedes aegypti |
|
| Relations |
| BioSample |
SAMN36912188 |
| SRA |
SRX21314136 |
| SRA |
SRX21314135 |
