|
| Status |
Public on May 19, 2024 |
| Title |
PADI Library 1, Bin 7 |
| Sample type |
SRA |
| |
|
| Source name |
MATa TF Library x MATalpha Reporter Strain
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
cell line: MATa TF Library x MATalpha Reporter Strain
|
| Treatment protocol |
Overnight cultures were diluted 1:5 in SC with 1 µM beta-estradiol and grown for 4 hours at 30 °C before sorting on the BC Astrios or BD Aria-II
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Sorted cells were grown overnight and then pelleted. Genomic DNA was extracted from cell pellets with YeaStar Genomic DNA Kit (Zymo Research).
Sequencing libraries were generated through three PCR reactions. PCR1 amplified a 600bp fragment that contained the tested fragment from the integrated locus. PCR2 amplified the fragment itself and added phasing and Illumina sequencing adapters. PCR3 completed the Illumina sequencing adapters and added indexes to each sample that were specific for each bin and yeast library tested.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
bwa-mem 0.7.17-r1188 was used to perform alignment of reads to the designed DNA fragment library
samtools v1.10 was used to generate sorted BAM files and extract read counts aligned to each fragment
Supplementary files format and content: CSV files with Fragment Name, AD AA sequence, Designed DNA sequence, Number of Reads
Library strategy: Amplicon
|
| |
|
| Submission date |
Jun 06, 2023 |
| Last update date |
May 20, 2024 |
| Contact name |
Lucia C. Strader |
| E-mail(s) |
lucia.strader@duke.edu
|
| Organization name |
Duke University
|
| Department |
Biology
|
| Lab |
Strader Lab
|
| Street address |
124 Science Drive 3332 French Family Science Center
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27708 |
| Country |
USA |
| |
|
| Platform ID |
GPL27812 |
| Series (1) |
| GSE234215 |
High Throughput Plant Activation Domain Identification and Mapping |
|
| Relations |
| BioSample |
SAMN35639120 |
| SRA |
SRX20598916 |
