Datasets

subject: Binding Sites

Total is 7 Results
Characterization of Local Geometry of Protein Surfaces with the Visibility Criteria

10.4231/D3BZ61792

Bin Li, Daisuke Kihara, Manish Agrawal, Srinivasan Turuvekere

03/08/2013

Experimentally determined protein tertiary structures are rapidly accumulating in a database, partly due to the structural genomics projects. Included are proteins of unknown function, whose function has not been investigated by experiments and was not abl...

Argininosuccinate Synthase Binding Sites Biochemistry Bioinformatics Computer Simulation Molecular Biosciences Protein Structure Sensitivity and Specificity Tertiary Tetrahydrofolate Dehydrogenase/chemistry

Limitations and Potentials of Current Motif Discovery Algorithms

10.4231/D33F4KN2K

Bin Li, Daisuke Kihara, Jianjun Hu

03/08/2013

Computational methods for de novo identification of gene regulation elements, such as transcription factor binding sites, have proved to be useful for deciphering genetic regulatory networks. However, despite the availability of a large number of algorithm...

Algorithms Base Sequence Binding Sites Biochemistry Bioinformatics Computational Biology / Methods DNA/Chemistry DNA/methods Escherichia coli/Genetics Factors/Metabolism Markov Chains Markov Chains Regulatory Sequences Molecular Biosciences Regulon Sequence Alignment Sequence Analysis

Position of MLL1 morphemes in human genomic DNA

10.4231/R7H41PBT

Daidong Wang, Elise Novorolsky, Minou Bina, Noorfatin J. Zulkefl, Phillip J. Wyss

03/04/2014

Mixed Lineage Leukemia 1 (MLL or MLL1) may play a central role in the recruitment of transcription factors to chromatin to regulate the expression of genes associated with !CpG islands. We have previously shown that MLL1 binds specific DNA sequence ele...

Binding Sites Bioinformatics Cell division Chemistry Chromatin structure Cis-elements Codes in DNA CpG islands Gene bookmarking Gene Regulation Mammalian genomes Mitosis MLL MLL binding sites Mouse genome Regulatory codes TREs Trithorax response elements

Localization of MLL1 morphemes in mouse mm9 genomic DNA

10.4231/R7KW5CXF

Daidong Wang, Minou Bina, Phillip J. Wyss, Xiaohui C. Song

04/01/2014

Access in genome browser. Mixed Lineage Leukemia 1 (MLL or MLL1) plays central roles in the regulation of protein-coding genes. Previous studies of mice have established that MLL1 controls key developmental pathways including the formation of body plan dur...

Binding Sites Cell division Chemistry Chromatin structure Cis-elements Codes in DNA CpG islands Gene bookmarking Gene Regulation Mammalian genomes Mitosis MLL MLL binding sites Mouse genome Regulatory codes TREs Trithorax response elements

Potential Transcription Factor Binding Sites in the Human Genome (hg19)

10.4231/R7JM27JN

Minou Bina, Phillip J. Wyss

10/08/2014

Access dataset in genome browser. Transcription factors bind specific DNA sequence elements to control the expression of genes.  In the human genome, Transcription factor Binding Sites (TFBSs) are dispersed in regulatory segments localized upstream, within...

Binding Sites Chemistry Gene Regulation Human Genome TFBSs Transcription Transcription factor binding sites Transcription Factors

Positions of predicted CTCF binding sites and unique A and B-repeats in the build hg19 of the Human Genome

10.4231/R74B2ZHD

Minou Bina

01/25/2018

In placental mammals, a group of genes is imprinted to impart parent-of-origin-specific expression.  The human chromosomal band 11p15.5 encompasses an imprinted domain (H19 - IGF2) regulated by an Imprinting Control Region (ICR) at about 2 kb upstream of t...

Binding Sites Chemistry Chromatin Boundaries Cohesin CTCF Gene Regulation Genomic imprinting Genomics H19 Human Genome IGF2 RAD21 SMC3

Positions of known ICRs/gDMRs with respect to peaks in plots of ZFBS-morph-overlap density in the mouse genome

10.4231/V87T-4X79

Minou Bina

06/04/2020

In mammalian genomes, a subset of genes is imprinted to produce parent-of-origin-specific expression.  This process is regulated by ICRs/gDMRs.  Previously, I demonstrated that in the mouse genome, the ICRs/gDMRs often encompass clusters of a set of compos...

Binding Sites Chemistry DMRs Gene Regulation Genomic imprinting Germline DMRs ICRs Imprinting Control Regions Mammalian genomes MLL1 morphemes Mouse genome ZFP57

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