Table I

SILAC ratios of TAFs identified after affinity purification of asynchronous extracts

Control and TBP HeLa S3 cells were grown in light and heavy media, respectively. SILAC ratios calculated in the experiment where samples were mixed before affinity purification are indicated in the protocol A column, whereas ratios calculated in the experiment where samples were mixed after affinity purification are indicated in the protocol B column. SILAC ratios were averaged over all quantified unique peptide pairs. Standard deviations are given. Peptide pair quant., number of unique peptide pairs used for the calculation of the ratios; ND, not determined.

ProteinIPI numberPurification protocol APurification protocol B
Peptide pair quant.RatioS.D.Peptide pair quant.RatioS.D.
TBPIPI0002283130.010.0130.000.00
BTAF1IPI00024802210.400.0730.010.01
TAF1IPI00009891130.020.0470.010.03
TAF2IPI0032814440.000.00NDNDND
TAF3IPI0047795940.000.00NDNDND
TAF4IPI00413755110.010.0160.000.00
TAF4bIPI0002325820.000.00NDNDND
TAF5IPI0029892590.020.0350.010.01
TAF6IPI00028579160.010.0140.000.00
TAF7IPI0001811180.010.01NDNDND
TAF8IPI00065313NDNDND40.000.00
TAF9IPI0000299350.010.0160.010.00
TAF9LIPI0064210520.000.0020.000.00
TAF10IPI0003036420.010.0020.000.00
TAF12IPI0000280650.010.0140.010.01
TAF13IPI0001810830.010.0020.010.01
TAFI110IPI0024684270.000.0150.000.01
TAFI63IPI0029141630.000.0020.000.00
TAFI48IPI0002426320.010.01NDNDND
TAFI40IPI0001222520.000.00NDNDND
Brf1IPI0001685960.100.0620.000.00