A citation-based method for searching scientific literature

Longjian Niu, Wei Shen, Yingzhang Huang, Na He, Yuedong Zhang, Jialei Sun, Jing Wan, Daxin Jiang, Manyun Yang, Yu Chung Tse, Li Li, Chunhui Hou. Commun Biol 2019
Times Cited: 10







List of co-cited articles
65 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Comprehensive mapping of long-range interactions reveals folding principles of the human genome.
Erez Lieberman-Aiden, Nynke L van Berkum, Louise Williams, Maxim Imakaev, Tobias Ragoczy, Agnes Telling, Ido Amit, Bryan R Lajoie, Peter J Sabo, Michael O Dorschner,[...]. Science 2009
70

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
70

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
50

Capturing chromosome conformation.
Job Dekker, Karsten Rippe, Martijn Dekker, Nancy Kleckner. Science 2002
50

Disruptions of topological chromatin domains cause pathogenic rewiring of gene-enhancer interactions.
Darío G Lupiáñez, Katerina Kraft, Verena Heinrich, Peter Krawitz, Francesco Brancati, Eva Klopocki, Denise Horn, Hülya Kayserili, John M Opitz, Renata Laxova,[...]. Cell 2015
40

CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function.
Ya Guo, Quan Xu, Daniele Canzio, Jia Shou, Jinhuan Li, David U Gorkin, Inkyung Jung, Haiyang Wu, Yanan Zhai, Yuanxiao Tang,[...]. Cell 2015
543
40

Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes.
Wenxiu Ma, Ferhat Ay, Choli Lee, Gunhan Gulsoy, Xinxian Deng, Savannah Cook, Jennifer Hesson, Christopher Cavanaugh, Carol B Ware, Anton Krumm,[...]. Nat Methods 2015
136
30

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
551
30

The 4D nucleome project.
Job Dekker, Andrew S Belmont, Mitchell Guttman, Victor O Leshyk, John T Lis, Stavros Lomvardas, Leonid A Mirny, Clodagh C O'Shea, Peter J Park, Bing Ren,[...]. Nature 2017
317
30

Allelic reprogramming of 3D chromatin architecture during early mammalian development.
Zhenhai Du, Hui Zheng, Bo Huang, Rui Ma, Jingyi Wu, Xianglin Zhang, Jing He, Yunlong Xiang, Qiujun Wang, Yuanyuan Li,[...]. Nature 2017
254
30

Spatial partitioning of the regulatory landscape of the X-inactivation centre.
Elphège P Nora, Bryan R Lajoie, Edda G Schulz, Luca Giorgetti, Ikuhiro Okamoto, Nicolas Servant, Tristan Piolot, Nynke L van Berkum, Johannes Meisig, John Sedat,[...]. Nature 2012
30

Higher-Order Inter-chromosomal Hubs Shape 3D Genome Organization in the Nucleus.
Sofia A Quinodoz, Noah Ollikainen, Barbara Tabak, Ali Palla, Jan Marten Schmidt, Elizabeth Detmar, Mason M Lai, Alexander A Shishkin, Prashant Bhat, Yodai Takei,[...]. Cell 2018
382
30

Massively multiplex single-cell Hi-C.
Vijay Ramani, Xinxian Deng, Ruolan Qiu, Kevin L Gunderson, Frank J Steemers, Christine M Disteche, William S Noble, Zhijun Duan, Jay Shendure. Nat Methods 2017
289
30

Formation of Chromosomal Domains by Loop Extrusion.
Geoffrey Fudenberg, Maxim Imakaev, Carolyn Lu, Anton Goloborodko, Nezar Abdennur, Leonid A Mirny. Cell Rep 2016
887
30

An oestrogen-receptor-alpha-bound human chromatin interactome.
Melissa J Fullwood, Mei Hui Liu, You Fu Pan, Jun Liu, Han Xu, Yusoff Bin Mohamed, Yuriy L Orlov, Stoyan Velkov, Andrea Ho, Poh Huay Mei,[...]. Nature 2009
30

BL-Hi-C is an efficient and sensitive approach for capturing structural and regulatory chromatin interactions.
Zhengyu Liang, Guipeng Li, Zejun Wang, Mohamed Nadhir Djekidel, Yanjian Li, Min-Ping Qian, Michael Q Zhang, Yang Chen. Nat Commun 2017
39
30

Insulator dysfunction and oncogene activation in IDH mutant gliomas.
William A Flavahan, Yotam Drier, Brian B Liau, Shawn M Gillespie, Andrew S Venteicher, Anat O Stemmer-Rachamimov, Mario L Suvà, Bradley E Bernstein. Nature 2016
699
30

Cohesin Loss Eliminates All Loop Domains.
Suhas S P Rao, Su-Chen Huang, Brian Glenn St Hilaire, Jesse M Engreitz, Elizabeth M Perez, Kyong-Rim Kieffer-Kwon, Adrian L Sanborn, Sarah E Johnstone, Gavin D Bascom, Ivan D Bochkov,[...]. Cell 2017
835
30

Mapping Nucleosome Resolution Chromosome Folding in Yeast by Micro-C.
Tsung-Han S Hsieh, Assaf Weiner, Bryan Lajoie, Job Dekker, Nir Friedman, Oliver J Rando. Cell 2015
337
30

Three-dimensional genome structures of single diploid human cells.
Longzhi Tan, Dong Xing, Chi-Han Chang, Heng Li, X Sunney Xie. Science 2018
200
30

3D structures of individual mammalian genomes studied by single-cell Hi-C.
Tim J Stevens, David Lando, Srinjan Basu, Liam P Atkinson, Yang Cao, Steven F Lee, Martin Leeb, Kai J Wohlfahrt, Wayne Boucher, Aoife O'Shaughnessy-Kirwan,[...]. Nature 2017
435
30

Complex multi-enhancer contacts captured by genome architecture mapping.
Robert A Beagrie, Antonio Scialdone, Markus Schueler, Dorothee C A Kraemer, Mita Chotalia, Sheila Q Xie, Mariano Barbieri, Inês de Santiago, Liron-Mark Lavitas, Miguel R Branco,[...]. Nature 2017
347
30

Mapping of long-range chromatin interactions by proximity ligation-assisted ChIP-seq.
Rongxin Fang, Miao Yu, Guoqiang Li, Sora Chee, Tristin Liu, Anthony D Schmitt, Bing Ren. Cell Res 2016
170
30

HiChIP: efficient and sensitive analysis of protein-directed genome architecture.
Maxwell R Mumbach, Adam J Rubin, Ryan A Flynn, Chao Dai, Paul A Khavari, William J Greenleaf, Howard Y Chang. Nat Methods 2016
507
30

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
30

Juicebox.js Provides a Cloud-Based Visualization System for Hi-C Data.
James T Robinson, Douglass Turner, Neva C Durand, Helga Thorvaldsdóttir, Jill P Mesirov, Erez Lieberman Aiden. Cell Syst 2018
120
20

HiC-Pro: an optimized and flexible pipeline for Hi-C data processing.
Nicolas Servant, Nelle Varoquaux, Bryan R Lajoie, Eric Viara, Chong-Jian Chen, Jean-Philippe Vert, Edith Heard, Job Dekker, Emmanuel Barillot. Genome Biol 2015
858
20

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
919
20

Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities.
Sven Heinz, Christopher Benner, Nathanael Spann, Eric Bertolino, Yin C Lin, Peter Laslo, Jason X Cheng, Cornelis Murre, Harinder Singh, Christopher K Glass. Mol Cell 2010
20

Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization.
Iain Williamson, Soizik Berlivet, Ragnhild Eskeland, Shelagh Boyle, Robert S Illingworth, Denis Paquette, Josée Dostie, Wendy A Bickmore. Genes Dev 2014
171
20

Nuclear condensates of the Polycomb protein chromobox 2 (CBX2) assemble through phase separation.
Roubina Tatavosian, Samantha Kent, Kyle Brown, Tingting Yao, Huy Nguyen Duc, Thao Ngoc Huynh, Chao Yu Zhen, Brian Ma, Haobin Wang, Xiaojun Ren. J Biol Chem 2019
158
20

Liquid Nuclear Condensates Mechanically Sense and Restructure the Genome.
Yongdae Shin, Yi-Che Chang, Daniel S W Lee, Joel Berry, David W Sanders, Pierre Ronceray, Ned S Wingreen, Mikko Haataja, Clifford P Brangwynne. Cell 2019
22
20

Comparative Hi-C reveals that CTCF underlies evolution of chromosomal domain architecture.
Matteo Vietri Rudan, Christopher Barrington, Stephen Henderson, Christina Ernst, Duncan T Odom, Amos Tanay, Suzana Hadjur. Cell Rep 2015
409
20

A mechanism of cohesin-dependent loop extrusion organizes zygotic genome architecture.
Johanna Gassler, Hugo B Brandão, Maxim Imakaev, Ilya M Flyamer, Sabrina Ladstätter, Wendy A Bickmore, Jan-Michael Peters, Leonid A Mirny, Kikuë Tachibana. EMBO J 2017
185
20

Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin.
Adam G Larson, Daniel Elnatan, Madeline M Keenen, Michael J Trnka, Jonathan B Johnston, Alma L Burlingame, David A Agard, Sy Redding, Geeta J Narlikar. Nature 2017
838
20

Targeted Degradation of CTCF Decouples Local Insulation of Chromosome Domains from Genomic Compartmentalization.
Elphège P Nora, Anton Goloborodko, Anne-Laure Valton, Johan H Gibcus, Alec Uebersohn, Nezar Abdennur, Job Dekker, Leonid A Mirny, Benoit G Bruneau. Cell 2017
785
20

RNA Interactions Are Essential for CTCF-Mediated Genome Organization.
Ricardo Saldaña-Meyer, Javier Rodriguez-Hernaez, Thelma Escobar, Mayilaadumveettil Nishana, Karina Jácome-López, Elphege P Nora, Benoit G Bruneau, Aristotelis Tsirigos, Mayra Furlan-Magaril, Jane Skok,[...]. Mol Cell 2019
101
20

Multiplex chromatin interactions with single-molecule precision.
Meizhen Zheng, Simon Zhongyuan Tian, Daniel Capurso, Minji Kim, Rahul Maurya, Byoungkoo Lee, Emaly Piecuch, Liang Gong, Jacqueline Jufen Zhu, Zhihui Li,[...]. Nature 2019
105
20

Digestion-ligation-only Hi-C is an efficient and cost-effective method for chromosome conformation capture.
Da Lin, Ping Hong, Siheng Zhang, Weize Xu, Muhammad Jamal, Keji Yan, Yingying Lei, Liang Li, Yijun Ruan, Zhen F Fu,[...]. Nat Genet 2018
47
20

Phase-separation mechanism for C-terminal hyperphosphorylation of RNA polymerase II.
Huasong Lu, Dan Yu, Anders S Hansen, Sourav Ganguly, Rongdiao Liu, Alec Heckert, Xavier Darzacq, Qiang Zhou. Nature 2018
273
20

LHX2- and LDB1-mediated trans interactions regulate olfactory receptor choice.
Kevin Monahan, Adan Horta, Stavros Lomvardas. Nature 2019
126
20

Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C.
Borbala Mifsud, Filipe Tavares-Cadete, Alice N Young, Robert Sugar, Stefan Schoenfelder, Lauren Ferreira, Steven W Wingett, Simon Andrews, William Grey, Philip A Ewels,[...]. Nat Genet 2015
569
20

Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins.
Gordana Wutz, Csilla Várnai, Kota Nagasaka, David A Cisneros, Roman R Stocsits, Wen Tang, Stefan Schoenfelder, Gregor Jessberger, Matthias Muhar, M Julius Hossain,[...]. EMBO J 2017
358
20

Distinct Classes of Chromatin Loops Revealed by Deletion of an RNA-Binding Region in CTCF.
Anders S Hansen, Tsung-Han S Hsieh, Claudia Cattoglio, Iryna Pustova, Ricardo Saldaña-Meyer, Danny Reinberg, Xavier Darzacq, Robert Tjian. Mol Cell 2019
105
20

Single-nucleus Hi-C reveals unique chromatin reorganization at oocyte-to-zygote transition.
Ilya M Flyamer, Johanna Gassler, Maxim Imakaev, Hugo B Brandão, Sergey V Ulianov, Nezar Abdennur, Sergey V Razin, Leonid A Mirny, Kikuë Tachibana-Konwalski. Nature 2017
406
20

OCEAN-C: mapping hubs of open chromatin interactions across the genome reveals gene regulatory networks.
Tingting Li, Lumeng Jia, Yong Cao, Qing Chen, Cheng Li. Genome Biol 2018
27
20

The Cohesin Release Factor WAPL Restricts Chromatin Loop Extension.
Judith H I Haarhuis, Robin H van der Weide, Vincent A Blomen, J Omar Yáñez-Cuna, Mario Amendola, Marjon S van Ruiten, Peter H L Krijger, Hans Teunissen, René H Medema, Bas van Steensel,[...]. Cell 2017
386
20

Heterochromatin drives compartmentalization of inverted and conventional nuclei.
Martin Falk, Yana Feodorova, Natalia Naumova, Maxim Imakaev, Bryan R Lajoie, Heinrich Leonhardt, Boris Joffe, Job Dekker, Geoffrey Fudenberg, Irina Solovei,[...]. Nature 2019
239
20

Chromatin Architecture Emerges during Zygotic Genome Activation Independent of Transcription.
Clemens B Hug, Alexis G Grimaldi, Kai Kruse, Juan M Vaquerizas. Cell 2017
254
20



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.