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Containing 4 paired amphipathic helix domains (PAH domains), mSin 3A and mSin 3B have been shown to directly interact with several other transcriptional repressor proteins including HDAC 1, HDAC 2, RbAp 46, the methyl CpG binding protein MeCP 2, the Mad/Max heterodimer, and the corepressors silencing mediator of retinoic acid &amp","antibody vendorname":"Novus Biologicals","antibody vendorid":"NB600-1263","control":"IgG-rab","control description":"Input signal from Normal Rabbit IgG ChIP-seq.","controlid":"wgEncodeEH001834","replicate":"1","original_filename":"GSM935289_hg19_wgEncodeSydhTfbsH1hescSin3anb6001263IggrabSig.bigWig"},"geolst":["GSM935289"]},{"type":"bigWig","name":"Stanford ChipSeq H1-hESC Znf143","url":"http://egg.wustl.edu/d/hg19/GSM935514_1.bigWig","public":true,"mode":1,"qtc":{"anglescale":1,"pr":0,"pg":0,"pb":230,"nr":255,"ng":0,"nb":0,"pth":"#ffff00","nth":"#800000","thtype":1,"thmin":0,"thmax":115,"thpercentile":90,"height":60,"summeth":1},"annotation":["11101","24616","30018"],"details":{"lab":"Stanford","lab description":"Snyder - Stanford University","datatype":"ChipSeq","datatype description":"Chromatin IP Sequencing","cell":"H1-hESC","cell organism":"human","cell description":"embryonic stem cells","cell karyotype":"normal","cell lineage":"inner cell mass","cell sex":"M","treatment":"None","treatment description":"No special treatment or protocol applies","antibody":"Znf143_(16618-1-AP)","antibody antibodydescription":"Rabbit polyclonal against human ZNF143 (amino acids 283-626)-6his fusion protein. 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Raised against E. coli-derived rhMxi1. Antibody Target: Mxi1","antibody targetdescription":"Transcriptional repressor. Binds with MAX to form recognize the core sequence 5'-CAC[GA]TG-3', antagonizes MYC transcriptional activity by competing for MAX","antibody vendorname":"R&D Systems","antibody vendorid":"AF4185","control":"IgG-rab","control description":"Input signal from Normal Rabbit IgG ChIP-seq.","controlid":"wgEncodeEH001834","replicate":"1","original_filename":"GSM935293_hg19_wgEncodeSydhTfbsH1hescMxi1IggrabSig.bigWig"},"geolst":["GSM935293"]},{"type":"bigWig","name":"Stanford ChipSeq H1-hESC Bach1","url":"http://egg.wustl.edu/d/hg19/GSM935580_1.bigWig","public":true,"mode":1,"qtc":{"anglescale":1,"pr":0,"pg":0,"pb":230,"nr":255,"ng":0,"nb":0,"pth":"#ffff00","nth":"#800000","thtype":1,"thmin":0,"thmax":115,"thpercentile":90,"height":60,"summeth":1},"annotation":["11101","24629","30018"],"details":{"lab":"Stanford","lab description":"Snyder - Stanford University","datatype":"ChipSeq","datatype description":"Chromatin IP Sequencing","cell":"H1-hESC","cell organism":"human","cell description":"embryonic stem cells","cell karyotype":"normal","cell lineage":"inner cell mass","cell sex":"M","treatment":"None","treatment description":"No special treatment or protocol applies","antibody":"Bach1_(sc-14700)","antibody antibodydescription":"BACH1 (C-20) is an affinity purified goat polyclonal antibody raised against a peptide mapping near the C-terminus of BACH1 of human origin. Antibody Target: Bach1","antibody targetdescription":"This gene encodes a transcription factor that belongs to the cap'n'collar type of basic region leucine zipper factor family (CNC-bZip). The encoded protein contains broad complex, tramtrack, bric-a-brac/poxvirus and zinc finger (BTB/POZ) domains, which is atypical of CNC-bZip family members. These BTB/POZ domains facilitate protein-protein interactions and formation of homo- and/or hetero-oligomers. When this encoded protein forms a heterodimer with MafK, it functions as a repressor of Maf recognition element (MARE) and transcription is repressed. Multiple alternatively spliced transcript variants have been identified for this gene. (provided by RefSeq)","antibody vendorname":"Santa Cruz Biotech","antibody vendorid":"sc-14700","control":"IgG-rab","control description":"Input signal from Normal Rabbit IgG ChIP-seq.","controlid":"wgEncodeEH001834","replicate":"1","original_filename":"GSM935580_hg19_wgEncodeSydhTfbsH1hescBach1sc14700IggrabSig.bigWig"},"geolst":["GSM935580"]},{"type":"bigWig","name":"smRNA-Seq of H1","url":"http://egg.wustl.edu/d/hg19/GSM450239.bigWig","public":true,"mode":1,"qtc":{"anglescale":1,"pr":0,"pg":0,"pb":230,"nr":255,"ng":0,"nb":0,"pth":"#ffff00","nth":"#800000","thtype":0,"thmin":0,"thmax":10,"thpercentile":90,"height":60,"summeth":1},"annotation":["11101","25003","30014"],"details":{"batch":"#2","molecule":"","disease":"None","biomaterial_provider":"Cellular Dynamics International","biomaterial_type":"Cell Line","line":"H1 (WA01)","lineage":"NA","differentiation_stage":"undifferentiated","differentiation_method":"NA","passage":"NA","medium":"NA","Sex":"Male","experiment_type":"smRNA-Seq","extraction_protocol":"Total RNA was extracted using Trizol from Invitrogen as per manufacturer's instuctions.","extraction_protocol_smrna_enrichment":"The small RNA fraction was separated by electrophoresis on a Novex 10% TBE-Urea gel and the fraction between approximately 14-30nt was excised.  The excisd fraction was then eluted from gel fragements, followed by EtOH precipitation and was resuspended in 6.3ul.","smrna_preparation_initial_smrna_qnty":"10000 ng","rna_preparation_5'_rna_adapter_sequence":"5' GUUCAGAGUUCUACAGUCCGACGAUC 3'","rna_preparation_3'_rna_adapter_sequence":"5' pUCGUAUGCCGUCUUCUGCUUGidT 3' (p=phosphate, idT=inverted deoxythyidine)","rna_preparation_reverse_transcription_primer_sequence":"5' CAAGCAGAAGACGGCATACGA 3'","rna_preparation_3'_rna_adapter_ligation_protocol":"3' RNA adapter ligation was set up with 6.3ul of purified 5' ligation product, 1.2ul of 10uM 3' RNA adapter, 1ul of 10x Ligation buffer, 1ul of T4 RNA Ligase (5U/ul from Ambion)), and 0.5ul of Rnase OUT (40U/ul from Invitrogen).  The ligation reaction was incubated at 16oC overnight.","rna_preparation_5'_rna_adapter_ligation_protocol":"5' RNA adapter ligation was set up with 6.2ul of purified small RNA fraction (14-30nt), 1.3ul of 5uM 5' RNA adapter, 1ul of 10x Ligation buffer, 1ul of T4 RNA Ligase (5U/ul from Ambion), and 0.5ul of Rnase OUT (40U/ul from Invitrogen).  Ligation reaction was incubated at 16oC overnight.","rna_preparation_reverse_transcription_protocol":"To 4.5ul of purified ligated RNA, 0.5ul of 100uM Small RNA RT-Primer was added and heat denatured at 70oC for 2 mins.  Sample was then placed on a rack at room temperature and the following reagents were added immediately to the sample (2.0ul of 5X First Strand Buffer, 0.65ul of 10mM dNTPs (Invitrogen), 1ul of 100mM DTT (Invitrogen) and 0.5ul of RNaseOUT (40U/ul from Invitrogen).  Reaction was heated at 48oC for 3mins.  1.0ul of Superscript II RT (200U/ul from Invitrogen) was added to the reaction and was incubated at 44oC for 1 hr.  After 1hr of incubation, tube was placed on ice.  12ul of DEPC water was added to the first strand cDNA product to make a final total volume of approximately 20ul.","library_generation_pcr_template":"10ul of the first strand cDNA product was used in the PCR","library_generation_pcr_polymerase_type":"Phusion DNA Polymerase (Hot Start), 2U/ul (from NEB)","library_generation_pcr_thermocycling_program":"98oC for 30sec, 98oC for 10sec, 60oC for 30sec, 72oC for 15sec for 15 cycles, 72oC for 5min","library_generation_pcr_number_cycles":"15","library_generation_pcr_f_primer_sequence":"5 AATGATACGGCGACCACCGACAGGTTCAGAGTTCTACAGTCCGA 3","library_generation_pcr_r_primer_sequence":"5 CAAGCAGAAGACGGCATACGA 3","library_generation_pcr_primer_conc":"0.25uM","library_generation_pcr_product_isolation_protocol":"PCR product was separated by electrophoresis on 8% TBE Novex Gel and the PCR product between 92-125bp was excised.  Product was then eluted from gel fragements, followed by EtOH precipitation","original_filename":"GSM450239_UCSF-UBC.H1.smRNA-Seq.H1EScd1_batch2_vial1.bigWig","Embargo end date":"2010-10-07"},"geolst":["GSM450239"]},{"type":"bigWig","name":"RNAseq of ESC.H1","url":"http://remc.wustl.edu/dli/roadmap/RNAseq/E003.bigWig","public":true,"mode":1,"qtc":{"anglescale":1,"pr":79,"pg":97,"pb":44,"nr":255,"ng":0,"nb":0,"pth":"#ffff00","nth":"#800000","thtype":0,"thmin":0,"thmax":10,"thpercentile":90,"height":60,"summeth":1,"smooth":7},"annotation":["11101","25002"],"details":{"EID":"E003","Sample_shortname":"ESC","Sample_fullname":"ESC.H1","Original_file_from":"ftp://ftp.bcgsc.ca/public/mbilenky/112epigenomes/","track_Processed_by":"WashU Browser group on Mar 26 2014"}},{"type":"bigWig","name":"RNAseq of HRT.ATR.R","url":"http://remc.wustl.edu/dli/roadmap/RNAseq/E104.bigWig","public":true,"mode":1,"qtc":{"anglescale":1,"pr":79,"pg":97,"pb":44,"nr":255,"ng":0,"nb":0,"pth":"#ffff00","nth":"#800000","thtype":0,"thmin":0,"thmax":10,"thpercentile":90,"height":60,"summeth":1,"smooth":7},"annotation":["13211","25002"],"details":{"EID":"E104","Sample_shortname":"Heart","Sample_fullname":"HRT.ATR.R","Original_file_from":"ftp://ftp.bcgsc.ca/public/mbilenky/112epigenomes/","track_Processed_by":"WashU Browser group on Mar 26 2014"}},{"type":"bigWig","name":"RNAseq of HRT.VENT.L","url":"http://remc.wustl.edu/dli/roadmap/RNAseq/E095.bigWig","public":true,"mode":1,"qtc":{"anglescale":1,"pr":79,"pg":97,"pb":44,"nr":255,"ng":0,"nb":0,"pth":"#ffff00","nth":"#800000","thtype":0,"thmin":0,"thmax":10,"thpercentile":90,"height":60,"summeth":1,"smooth":7},"annotation":["13210","25002"],"details":{"EID":"E095","Sample_shortname":"Heart","Sample_fullname":"HRT.VENT.L","Original_file_from":"ftp://ftp.bcgsc.ca/public/mbilenky/112epigenomes/","track_Processed_by":"WashU Browser group on Mar 26 2014"}},{"type":"native_track","list":[{"name":"refGene","mode":3,"qtc":{"anglescale":1,"pr":0,"pg":77,"pb":0,"nr":0,"ng":0,"nb":230,"pth":"#800000","nth":"#000099","thtype":0,"thmin":0,"thmax":10,"thpercentile":95,"height":50,"summeth":1,"textcolor":"rgb(0,0,0)","fontsize":"8pt","fontfamily":"sans-serif","fontbold":false,"bedcolor":"rgb(0,77,153)"}},{"name":"rmsk_ensemble","mode":1,"qtc":{"anglescale":1,"height":60},"categories":{"1":["SINE - short interspersed nuclear elements","#cc0000"],"2":["LINE - long interspersed nuclear element","#FF6600"],"3":["LTR - long terminal repeat element","#006600"],"4":["DNA transposon","#4A72E8"],"5":["Simple repeat, micro-satellite","#AB833B"],"6":["Satellite repeat","#660000"],"7":["Low complexity repeat","#663333"],"8":["RNA repeat","#cc33ff"],"9":["Other repeats","#488E8E"],"10":["Unknown","#5C5C5C"],"-1":["no information","transparent"]}}]},{"type":"coordinate_override","coord":"chr1,11903503,chr1,11923410"},{"type":"metadata","vocabulary":{"View":["Default_View","macs2signal_pval","macs2signal_foldChange","narrowPeak","broadPeak","gappedPeak","Auxiliary_segmentation","Imputed_segmentation"],"Type":["Real","Imputed"],"EID":["E001","E002","E003","E004","E005","E006","E007","E008","E009","E010","E011","E012","E013","E014","E015","E016","E017","E018","E019","E020","E021","E022","E023","E024","E025","E026","E027","E028","E029","E030","E031","E032","E033","E034","E035","E036","E037","E038","E039","E040","E041","E042","E043","E044","E045","E046","E047","E048","E049","E050","E051","E052","E053","E054","E055","E056","E057","E058","E059","E061","E062","E063","E065","E066","E067","E068","E069","E070","E071","E072","E073","E074","E075","E076","E077","E078","E079","E080","E081","E082","E083","E084","E085","E086","E087","E088","E089","E090","E091","E092","E093","E094","E095","E096","E097","E098","E099","E100","E101","E102","E103","E104","E105","E106","E107","E108","E109","E110","E111","E112","E113","E114","E115","E116","E117","E118","E119","E120","E121","E122","E123","E124","E125","E126","E127","E128","E129"],"Data format":["BED","bigWig","bedGraph","interaction","categorical","methylC","Hammock","BAM"]},"show":["View","Type"],"source":"http://epigenomecloud.wustl.edu/roadmap/roadmap_integrative_methylC_03282014.json","termname":{},"termcolor":{},"termdesc":{}},{"type":"native_metadata_terms","list":["Assay","Sample"]}]