Polina Belokopytova, Veniamin Fishman. Front Genet 2021
Times Cited: 6
Times Cited: 6
Times Cited
Times Co-cited
Similarity
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.
Suhas S P Rao, Miriam H Huntley, Neva C Durand, Elena K Stamenova, Ivan D Bochkov, James T Robinson, Adrian L Sanborn, Ido Machol, Arina D Omer, Eric S Lander,[...]. Cell 2014
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Topological domains in mammalian genomes identified by analysis of chromatin interactions.
Jesse R Dixon, Siddarth Selvaraj, Feng Yue, Audrey Kim, Yan Li, Yin Shen, Ming Hu, Jun S Liu, Bing Ren. Nature 2012
Jesse R Dixon, Siddarth Selvaraj, Feng Yue, Audrey Kim, Yan Li, Yin Shen, Ming Hu, Jun S Liu, Bing Ren. Nature 2012
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Quantitative prediction of enhancer-promoter interactions.
Polina S Belokopytova, Miroslav A Nuriddinov, Evgeniy A Mozheiko, Daniil Fishman, Veniamin Fishman. Genome Res 2020
Polina S Belokopytova, Miroslav A Nuriddinov, Evgeniy A Mozheiko, Daniil Fishman, Veniamin Fishman. Genome Res 2020
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Integrative analysis of 111 reference human epigenomes.
Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi-Moussavi, Pouya Kheradpour, Zhizhuo Zhang, Jianrong Wang, Michael J Ziller,[...]. Nature 2015
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Disruptions of topological chromatin domains cause pathogenic rewiring of gene-enhancer interactions.
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Widespread rearrangement of 3D chromatin organization underlies polycomb-mediated stress-induced silencing.
Li Li, Xiaowen Lyu, Chunhui Hou, Naomi Takenaka, Huy Q Nguyen, Chin-Tong Ong, Caelin Cubeñas-Potts, Ming Hu, Elissa P Lei, Giovanni Bosco,[...]. Mol Cell 2015
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Identification of hierarchical chromatin domains.
Caleb Weinreb, Benjamin J Raphael. Bioinformatics 2016
Caleb Weinreb, Benjamin J Raphael. Bioinformatics 2016
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Condensin-driven remodelling of X chromosome topology during dosage compensation.
Emily Crane, Qian Bian, Rachel Patton McCord, Bryan R Lajoie, Bayly S Wheeler, Edward J Ralston, Satoru Uzawa, Job Dekker, Barbara J Meyer. Nature 2015
Emily Crane, Qian Bian, Rachel Patton McCord, Bryan R Lajoie, Bayly S Wheeler, Edward J Ralston, Satoru Uzawa, Job Dekker, Barbara J Meyer. Nature 2015
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A high-resolution map of the three-dimensional chromatin interactome in human cells.
Fulai Jin, Yan Li, Jesse R Dixon, Siddarth Selvaraj, Zhen Ye, Ah Young Lee, Chia-An Yen, Anthony D Schmitt, Celso A Espinoza, Bing Ren. Nature 2013
Fulai Jin, Yan Li, Jesse R Dixon, Siddarth Selvaraj, Zhen Ye, Ah Young Lee, Chia-An Yen, Anthony D Schmitt, Celso A Espinoza, Bing Ren. Nature 2013
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A computational method to predict topologically associating domain boundaries combining histone Marks and sequence information.
Wei Gan, Juan Luo, Yi Zhou Li, Jia Li Guo, Min Zhu, Meng Long Li. BMC Genomics 2019
Wei Gan, Juan Luo, Yi Zhou Li, Jia Li Guo, Min Zhu, Meng Long Li. BMC Genomics 2019
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Comprehensive mapping of long-range interactions reveals folding principles of the human genome.
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On the existence and functionality of topologically associating domains.
Jonathan A Beagan, Jennifer E Phillips-Cremins. Nat Genet 2020
Jonathan A Beagan, Jennifer E Phillips-Cremins. Nat Genet 2020
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Automatic analysis and 3D-modelling of Hi-C data using TADbit reveals structural features of the fly chromatin colors.
François Serra, Davide Baù, Mike Goodstadt, David Castillo, Guillaume J Filion, Marc A Marti-Renom. PLoS Comput Biol 2017
François Serra, Davide Baù, Mike Goodstadt, David Castillo, Guillaume J Filion, Marc A Marti-Renom. PLoS Comput Biol 2017
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Three-dimensional chromatin in disease: What holds us together and what drives us apart?
Daniel M Ibrahim, Stefan Mundlos. Curr Opin Cell Biol 2020
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Recent evidence that TADs and chromatin loops are dynamic structures.
Anders S Hansen, Claudia Cattoglio, Xavier Darzacq, Robert Tjian. Nucleus 2018
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Disease-Associated Short Tandem Repeats Co-localize with Chromatin Domain Boundaries.
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CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription.
Zhonghui Tang, Oscar Junhong Luo, Xingwang Li, Meizhen Zheng, Jacqueline Jufen Zhu, Przemyslaw Szalaj, Pawel Trzaskoma, Adriana Magalska, Jakub Wlodarczyk, Blazej Ruszczycki,[...]. Cell 2015
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Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom.
Neva C Durand, James T Robinson, Muhammad S Shamim, Ido Machol, Jill P Mesirov, Eric S Lander, Erez Lieberman Aiden. Cell Syst 2016
Neva C Durand, James T Robinson, Muhammad S Shamim, Ido Machol, Jill P Mesirov, Eric S Lander, Erez Lieberman Aiden. Cell Syst 2016
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Three-dimensional folding and functional organization principles of the Drosophila genome.
Tom Sexton, Eitan Yaffe, Ephraim Kenigsberg, Frédéric Bantignies, Benjamin Leblanc, Michael Hoichman, Hugues Parrinello, Amos Tanay, Giacomo Cavalli. Cell 2012
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Two major mechanisms of chromosome organization.
Leonid A Mirny, Maxim Imakaev, Nezar Abdennur. Curr Opin Cell Biol 2019
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Computational methods for the prediction of chromatin interaction and organization using sequence and epigenomic profiles.
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Ultrastructural Details of Mammalian Chromosome Architecture.
Nils Krietenstein, Sameer Abraham, Sergey V Venev, Nezar Abdennur, Johan Gibcus, Tsung-Han S Hsieh, Krishna Mohan Parsi, Liyan Yang, René Maehr, Leonid A Mirny,[...]. Mol Cell 2020
Nils Krietenstein, Sameer Abraham, Sergey V Venev, Nezar Abdennur, Johan Gibcus, Tsung-Han S Hsieh, Krishna Mohan Parsi, Liyan Yang, René Maehr, Leonid A Mirny,[...]. Mol Cell 2020
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Formation of new chromatin domains determines pathogenicity of genomic duplications.
Martin Franke, Daniel M Ibrahim, Guillaume Andrey, Wibke Schwarzer, Verena Heinrich, Robert Schöpflin, Katerina Kraft, Rieke Kempfer, Ivana Jerković, Wing-Lee Chan,[...]. Nature 2016
Martin Franke, Daniel M Ibrahim, Guillaume Andrey, Wibke Schwarzer, Verena Heinrich, Robert Schöpflin, Katerina Kraft, Rieke Kempfer, Ivana Jerković, Wing-Lee Chan,[...]. Nature 2016
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Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments.
Neva C Durand, Muhammad S Shamim, Ido Machol, Suhas S P Rao, Miriam H Huntley, Eric S Lander, Erez Lieberman Aiden. Cell Syst 2016
Neva C Durand, Muhammad S Shamim, Ido Machol, Suhas S P Rao, Miriam H Huntley, Eric S Lander, Erez Lieberman Aiden. Cell Syst 2016
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Multiscale 3D Genome Rewiring during Mouse Neural Development.
Boyan Bonev, Netta Mendelson Cohen, Quentin Szabo, Lauriane Fritsch, Giorgio L Papadopoulos, Yaniv Lubling, Xiaole Xu, Xiaodan Lv, Jean-Philippe Hugnot, Amos Tanay,[...]. Cell 2017
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Quantitative modeling of transcription factor binding specificities using DNA shape.
Tianyin Zhou, Ning Shen, Lin Yang, Namiko Abe, John Horton, Richard S Mann, Harmen J Bussemaker, Raluca Gordân, Remo Rohs. Proc Natl Acad Sci U S A 2015
Tianyin Zhou, Ning Shen, Lin Yang, Namiko Abe, John Horton, Richard S Mann, Harmen J Bussemaker, Raluca Gordân, Remo Rohs. Proc Natl Acad Sci U S A 2015
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Transcription factor binding predictions using TRAP for the analysis of ChIP-seq data and regulatory SNPs.
Morgane Thomas-Chollier, Andrew Hufton, Matthias Heinig, Sean O'Keeffe, Nassim El Masri, Helge G Roider, Thomas Manke, Martin Vingron. Nat Protoc 2011
Morgane Thomas-Chollier, Andrew Hufton, Matthias Heinig, Sean O'Keeffe, Nassim El Masri, Helge G Roider, Thomas Manke, Martin Vingron. Nat Protoc 2011
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Structural and functional diversity of Topologically Associating Domains.
Job Dekker, Edith Heard. FEBS Lett 2015
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A critical assessment of topologically associating domain prediction tools.
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Clustered CTCF binding is an evolutionary mechanism to maintain topologically associating domains.
Elissavet Kentepozidou, Sarah J Aitken, Christine Feig, Klara Stefflova, Ximena Ibarra-Soria, Duncan T Odom, Maša Roller, Paul Flicek. Genome Biol 2020
Elissavet Kentepozidou, Sarah J Aitken, Christine Feig, Klara Stefflova, Ximena Ibarra-Soria, Duncan T Odom, Maša Roller, Paul Flicek. Genome Biol 2020
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Understanding the 3D genome: Emerging impacts on human disease.
Anton Krumm, Zhijun Duan. Semin Cell Dev Biol 2019
Anton Krumm, Zhijun Duan. Semin Cell Dev Biol 2019
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Analysis of the relationship between coexpression domains and chromatin 3D organization.
María E Soler-Oliva, José A Guerrero-Martínez, Valentina Bachetti, José C Reyes. PLoS Comput Biol 2017
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Gene Positioning Effects on Expression in Eukaryotes.
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Cancer Is Associated with Alterations in the Three-Dimensional Organization of the Genome.
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TopDom: an efficient and deterministic method for identifying topological domains in genomes.
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CHD7 targets active gene enhancer elements to modulate ES cell-specific gene expression.
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Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer.
Kadir C Akdemir, Victoria T Le, Sahaana Chandran, Yilong Li, Roel G Verhaak, Rameen Beroukhim, Peter J Campbell, Lynda Chin, Jesse R Dixon, P Andrew Futreal. Nat Genet 2020
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The macro and micro of chromosome conformation capture.
Viraat Y Goel, Anders S Hansen. Wiley Interdiscip Rev Dev Biol 2021
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GeneSrF and varSelRF: a web-based tool and R package for gene selection and classification using random forest.
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In silico identification of enhancers on the basis of a combination of transcription factor binding motif occurrences.
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Increased burden of ultra-rare structural variants localizing to boundaries of topologically associated domains in schizophrenia.
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TADs as modular and dynamic units for gene regulation by hormones.
François Le Dily, Miguel Beato. FEBS Lett 2015
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Chromatin remodeler CHD7 regulates the stem cell identity of human neural progenitors.
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Comparison of computational methods for Hi-C data analysis.
Mattia Forcato, Chiara Nicoletti, Koustav Pal, Carmen Maria Livi, Francesco Ferrari, Silvio Bicciato. Nat Methods 2017
Mattia Forcato, Chiara Nicoletti, Koustav Pal, Carmen Maria Livi, Francesco Ferrari, Silvio Bicciato. Nat Methods 2017
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TADBD: a sensitive and fast method for detection of typologically associated domain boundaries.
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HiTAD: detecting the structural and functional hierarchies of topologically associating domains from chromatin interactions.
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Xiao-Tao Wang, Wang Cui, Cheng Peng. Nucleic Acids Res 2017
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Non-B DB v2.0: a database of predicted non-B DNA-forming motifs and its associated tools.
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Digestion-ligation-only Hi-C is an efficient and cost-effective method for chromosome conformation capture.
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16
Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.