Antibodies and reagents
Plasmids and siRNAs
Cell culture and transfection
SILAC labeling
Nuclear extraction
Protein extraction and trypsin digestion
Kcr peptide enrichment
LC-MS/MS analysis
Database searching and protein quantification
Bioinformatics analysis
Immunoprecipitation and Western blotting
Purification of recombinant proteins
GST pull-down assay
Detection of ssDNA
Immunofluorescence staining and confocal microscopy
DNA-protein binding assay
Electrophoretic mobility shift assay
Colony formation assay
Flow cytometry
Statistical analysis
The tryptic peptides were fractionated into fractions by high-pH reversed-phase HPLC using a Thermo Betasil C18 column (5-μm particles, 10 mm ID, 250 mm length). Briefly, peptides were first separated with a gradient of 8 to 32% acetonitrile (pH 9.0) over 60 min into 60 fractions. Then, the peptides were combined into 10 fractions and dried by vacuum centrifugation.