Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
lin-39

Cell type

Cell type Class
Larvae
Cell type
L3
NA
NA

Attributes by original data submitter

Sample

source_name
Snyder_LIN-39-GFP_L3_rep2 extraction2_seq1 channel_2
strain
OP18(made_by : R. Waterston and S. Kim description : This strain's transgene was constructed by Mihail Sarov at the Max Planck Institute for Cell Biology in Tubiginen using Tony Hyman's recombineering pipeline. The resulting plasmid was used for biolistic transformation of an unc-119(ed3) strain. The LIN-39::EGFP fusion protein is expressed in the correct lin-39 spatio-temporal expression pattern. This strain was used for ChIP-seq experiments to map the in vivo binding sites for the LIN-39 transcription factor. tags : GFP::3xFlag mutagen : Bombard outcross : 3 genotype : unc-119(ed3) III; wgIs18 [unc-119(+) lin-39::TY1::EGFP::3xFLAG] official name : OP18 )
developmental stage
L3
genotype
unc-119(ed3) III; wgIs18 [unc-119(+) lin-39::TY1::EGFP::3xFLAG]
Sex
hermaphrodite

Sequenced DNA Library

library_name
GSM677618: Snyder_LIN-39-GFP_L3_rep2 extraction2_seq1 aliquote 2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

ce11

Number of total reads
8501634
Reads aligned (%)
16.2
Duplicates removed (%)
24.2
Number of peaks
3304 (qval < 1E-05)

ce10

Number of total reads
8501634
Reads aligned (%)
16.2
Duplicates removed (%)
24.2
Number of peaks
3302 (qval < 1E-05)

Base call quality data from DBCLS SRA