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Sample GSM7457496 Query DataSets for GSM7457496
Status Public on May 19, 2024
Title Pilot Library, 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 NextSeq 500
 
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 GPL19756
Series (1)
GSE234215 High Throughput Plant Activation Domain Identification and Mapping
Relations
BioSample SAMN35639003
SRA SRX20598904

Supplementary file Size Download File type/resource
GSM7457496_Pilot-7.numreads.csv.gz 67.0 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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