The downloadable datasets available here were generated in order to provide biological validation for transcription factor binding sites identified using ChIP-seq by the ENCODE/Stanford/Yale/USC/Harvard production group (also referred to as SYDH). Generally, these experiments involve transfection of an ENCODE cell line with an shRNA expression construct from the Open Biosystems TRIPZ inducible lentiviral shRNAmir collection or 4 pooled siRNAs from the Dharmacon ON-TARGETplus SMARTpool collection targeting a transcription factor. Changes in gene expression relative to a control transfection were measured either using Illumina microarray (shRNA transfections) or RNA-seq (siRNA transfections). Fold changes in gene expression for all interrogated transcripts are presented for each experiment. Where available, links are provided to the corresponding ChIP-seq experiment in the same cell line, although some experiments are still in progress or failed to meet our quality standards and were not submitted. An integrated analysis of this data is currently being prepared for publication, but this data is available to all users according to the ENCODE data release policy. Questions can be directed to Trupti Kawli in the Snyder group at trupti@stanford.edu.
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Parent Directory - K562_shAID_1_4465171159_E.csv 2012-04-04 16:21 1.2M K562_shAOF2_1_4465171155_J.csv 2012-04-04 16:21 1.2M K562_shATF2_4465171136_A.csv 2012-04-04 16:21 1.2M K562_shBCL11A_4465171136_B.csv 2012-04-04 16:21 1.2M K562_shBRCA_4465171136_E.csv 2012-04-04 16:21 1.2M K562_shBRG1_4465171136_C.csv 2012-04-04 16:21 1.2M K562_shCJUN_4465171135_D.csv 2012-04-04 16:21 1.2M K562_shCMAF_4465171136_J.csv 2012-04-04 16:21 1.2M K562_shCON_1_4465171155_I.csv 2012-04-04 16:21 1.2M K562_shCP2_4465171136_D.csv 2012-04-04 16:21 1.2M K562_shEGR1_1_4465171159_F.csv 2012-04-04 16:21 1.2M K562_shFOS_4465171135_G.csv 2012-04-04 16:21 1.2M K562_shIKAROS_1_4465171159_C.csv 2012-04-04 16:21 1.2M K562_shIRF9_4465171136_H.csv 2012-04-04 16:21 1.2M K562_shJUNB_4465171135_E.csv 2012-04-04 16:21 1.2M K562_shLDB_1_4465171159_A.csv 2012-04-04 16:21 1.2M K562_shMCM5_1_4465171159_I.csv 2012-04-04 16:21 1.2M K562_shMCM5_2_4465171159_J.csv 2012-04-04 16:21 1.2M K562_shMRE-11_1_4465171155_H.csv 2012-04-04 16:21 1.2M K562_shMYC_4465171135_C.csv 2012-04-04 16:21 1.2M K562_shNF45_1_4465171155_C.csv 2012-04-04 16:21 1.2M K562_shNFE2_1_4465171159_K.csv 2012-04-04 16:21 1.2M K562_shORC_1_4465171155_E.csv 2012-04-04 16:21 1.2M K562_shPUI_4465171136_I.csv 2012-04-04 16:21 1.2M K562_shRAD_1_4465171159_L.csv 2012-04-04 16:21 1.2M K562_shRCOR1_1_4465171155_L.csv 2012-04-04 16:21 1.2M K562_shREST_1_4465171155_K.csv 2012-04-04 16:21 1.2M K562_shSMC3_1_4465171159_D.csv 2012-04-04 16:21 1.2M K562_shTOP213_4465171136_G.csv 2012-04-04 16:21 1.2M K562_shTRIP_4465171135_F.csv 2012-04-04 16:21 1.2M K562_shVEZF1_4465171136_F.csv 2012-04-04 16:21 1.2M K562_siATF2_4465171135_H.csv 2012-04-04 16:21 1.2M K562_siNF45#4_1_4465171155_D.csv 2012-04-04 16:21 1.2M K562_siNF90#1_1_4465171155_B.csv 2012-04-04 16:21 1.2M K562_siNF90#4_1_4465171155_A.csv 2012-04-04 16:21 1.2M K562_siNTCON_1_4465171155_F.csv 2012-04-04 16:21 1.2M K562_siSUBNT2_4465171135_I.csv 2012-04-04 16:21 1.2M TAL1_d3_K562.tgz 2012-04-13 09:47 23G USF2_d3_K562.tgz 2012-04-13 10:06 22G shRNA_metadata.csv 2012-04-13 10:44 3.7K