Table 1.
Antibodies used for ChIP assays
| Antibody specificity | Source | Catalog no. | Immunogen | Biological function | Commercial antibody name |
|---|---|---|---|---|---|
| TR | Full length Xenopus laevis TRβ | TR | |||
| ID14 | ETKCRCNMDGDVE | Extracellular protein expressed by intestinal epithelial cells | |||
| RNA Pol II | Abcam | ab5095 | Amino acid 1600–1700 (CTD repeat YSPTSPS, phosphorylated at S2) of Saccharomyces cerevisiae RNA Pol II | RNA Pol II | RNA Pol II CTD repeat YSPTSPS (phospho S2) antibody-ChIP grade (ab5095) |
| H2B | Millipore | 07-371 | Amino acids 118–126 (CG-AVTKYTSSK) of human histone H2B | Core histone | Antihistone H2B |
| H3 | Millipore | 07-690 | C terminus of human histone H3 | Core histone | Antihistone H3, CT, pan |
| H3K4me3 | Millipore | 07-473 | Residues surrounding and including trimethlyated Lys 4 of histone H3 | Transcriptional activation | Antitrimethyl-histone H3 (Lys4) |
| H3K79me3 | Abcam | ab2621 | Synthetic peptide conjugated to KLH derived from within residues 50 to the C terminus of human histone H3, trimethylated at K79 | Transcriptional activation | Histone H3 (trimethyl K79) antibody-ChIP grade (ab2621) |
| H3R17me2a | Millipore | 07-214 | Amino acid 11–21 (TGGKAPMe2RKQLA-C) of human histone H3 | Transcriptional activation | Antidimethyl-histone H3 (Arg17) |
| H3K9me3 | Millipore | 07-442 | … AR[me3K]ST … in which me3K corresponds to trimethyl-lysine at residue 9 of human histone H3 | Transcriptional repression | Antitrimethyl-histone H3 (Lys9) |
| H3K27me3 | Millipore | 07-449 | … AR (me3K)SAP … in which me3K corresponds to trimethyl-lysine at residue 27 of human histone H3 | Transcriptional repression | Antitrimethyl-histone H3 (Lys27) |
| AcH3 | Millipore | 06-599 | Amino acids 1–20 of tetrahymena histone H3 [ARTKQTAR(K*)STGG(K*)APRKQLC] where K* is acetylated (K9 and 14) | Transcriptional activation | Antiacetyl-histone H3 |
| AcH4 | Millipore | 06-866 | Amino acids 2–19 of tetrahymena histone H4 [AGG(K*)GG(K*)GMG(K*)VGA(K*)RHS-C] where K* is acetylated (K5, 8, 12, and 16) | Transcriptional activation | Antiacetyl-histone H4 |