A citation-based method for searching scientific literature

Daan Peric-Hupkes, Wouter Meuleman, Ludo Pagie, Sophia W M Bruggeman, Irina Solovei, Wim Brugman, Stefan Gräf, Paul Flicek, Ron M Kerkhoven, Maarten van Lohuizen, Marcel Reinders, Lodewyk Wessels, Bas van Steensel. Mol Cell 2010
Times Cited: 623







List of co-cited articles
1308 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions.
Lars Guelen, Ludo Pagie, Emilie Brasset, Wouter Meuleman, Marius B Faza, Wendy Talhout, Bert H Eussen, Annelies de Klein, Lodewyk Wessels, Wouter de Laat,[...]. Nature 2008
53

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
44


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
34

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
30

Single-cell dynamics of genome-nuclear lamina interactions.
Jop Kind, Ludo Pagie, Havva Ortabozkoyun, Shelagh Boyle, Sandra S de Vries, Hans Janssen, Mario Amendola, Leisha D Nolen, Wendy A Bickmore, Bas van Steensel. Cell 2013
386
29

Constitutive nuclear lamina-genome interactions are highly conserved and associated with A/T-rich sequence.
Wouter Meuleman, Daan Peric-Hupkes, Jop Kind, Jean-Bernard Beaudry, Ludo Pagie, Manolis Kellis, Marcel Reinders, Lodewyk Wessels, Bas van Steensel. Genome Res 2013
242
28

Genome-wide maps of nuclear lamina interactions in single human cells.
Jop Kind, Ludo Pagie, Sandra S de Vries, Leila Nahidiazar, Siddharth S Dey, Magda Bienko, Ye Zhan, Bryan Lajoie, Carolyn A de Graaf, Mario Amendola,[...]. Cell 2015
218
27

LBR and lamin A/C sequentially tether peripheral heterochromatin and inversely regulate differentiation.
Irina Solovei, Audrey S Wang, Katharina Thanisch, Christine S Schmidt, Stefan Krebs, Monika Zwerger, Tatiana V Cohen, Didier Devys, Roland Foisner, Leo Peichl,[...]. Cell 2013
437
27

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
441
21

Characterization of the Drosophila melanogaster genome at the nuclear lamina.
Helen Pickersgill, Bernike Kalverda, Elzo de Wit, Wendy Talhout, Maarten Fornerod, Bas van Steensel. Nat Genet 2006
402
20

Directed targeting of chromatin to the nuclear lamina is mediated by chromatin state and A-type lamins.
Jennifer C Harr, Teresa Romeo Luperchio, Xianrong Wong, Erez Cohen, Sarah J Wheelan, Karen L Reddy. J Cell Biol 2015
150
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
155
20

Phase separation drives heterochromatin domain formation.
Amy R Strom, Alexander V Emelyanov, Mustafa Mir, Dmitry V Fyodorov, Xavier Darzacq, Gary H Karpen. Nature 2017
691
20

DNA sequence-dependent compartmentalization and silencing of chromatin at the nuclear lamina.
Joseph M Zullo, Ignacio A Demarco, Roger Piqué-Regi, Daniel J Gaffney, Charles B Epstein, Chauncey J Spooner, Teresa R Luperchio, Bradley E Bernstein, Jonathan K Pritchard, Karen L Reddy,[...]. Cell 2012
283
20


Tissue-Specific Gene Repositioning by Muscle Nuclear Membrane Proteins Enhances Repression of Critical Developmental Genes during Myogenesis.
Michael I Robson, Jose I de Las Heras, Rafal Czapiewski, Phú Lê Thành, Daniel G Booth, David A Kelly, Shaun Webb, Alastair R W Kerr, Eric C Schirmer. Mol Cell 2016
86
23

Recruitment to the nuclear periphery can alter expression of genes in human cells.
Lee E Finlan, Duncan Sproul, Inga Thomson, Shelagh Boyle, Elizabeth Kerr, Paul Perry, Bauke Ylstra, Jonathan R Chubb, Wendy A Bickmore. PLoS Genet 2008
387
19

Capturing chromosome conformation.
Job Dekker, Karsten Rippe, Martijn Dekker, Nancy Kleckner. Science 2002
18

Step-wise methylation of histone H3K9 positions heterochromatin at the nuclear periphery.
Benjamin D Towbin, Cristina González-Aguilera, Ragna Sack, Dimos Gaidatzis, Véronique Kalck, Peter Meister, Peter Askjaer, Susan M Gasser. Cell 2012
344
18

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
643
18

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
641
18

Perinuclear Anchoring of H3K9-Methylated Chromatin Stabilizes Induced Cell Fate in C. elegans Embryos.
Adriana Gonzalez-Sandoval, Benjamin D Towbin, Veronique Kalck, Daphne S Cabianca, Dimos Gaidatzis, Michael H Hauer, Liqing Geng, Li Wang, Teddy Yang, Xinghao Wang,[...]. Cell 2015
106
18

Promoter-Intrinsic and Local Chromatin Features Determine Gene Repression in LADs.
Christ Leemans, Marloes C H van der Zwalm, Laura Brueckner, Federico Comoglio, Tom van Schaik, Ludo Pagie, Joris van Arensbergen, Bas van Steensel. Cell 2019
41
41

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
602
17

Genome-Nuclear Lamina Interactions Regulate Cardiac Stem Cell Lineage Restriction.
Andrey Poleshko, Parisha P Shah, Mudit Gupta, Apoorva Babu, Michael P Morley, Lauren J Manderfield, Jamie L Ifkovits, Damelys Calderon, Haig Aghajanian, Javier E Sierra-Pagán,[...]. Cell 2017
73
21

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
267
16

Lamins Organize the Global Three-Dimensional Genome from the Nuclear Periphery.
Xiaobin Zheng, Jiabiao Hu, Sibiao Yue, Lidya Kristiani, Miri Kim, Michael Sauria, James Taylor, Youngjo Kim, Yixian Zheng. Mol Cell 2018
72
22

Chromatin architecture reorganization during stem cell differentiation.
Jesse R Dixon, Inkyung Jung, Siddarth Selvaraj, Yin Shen, Jessica E Antosiewicz-Bourget, Ah Young Lee, Zhen Ye, Audrey Kim, Nisha Rajagopal, Wei Xie,[...]. Nature 2015
756
15

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
15

Two independent modes of chromatin organization revealed by cohesin removal.
Wibke Schwarzer, Nezar Abdennur, Anton Goloborodko, Aleksandra Pekowska, Geoffrey Fudenberg, Yann Loe-Mie, Nuno A Fonseca, Wolfgang Huber, Christian H Haering, Leonid Mirny,[...]. Nature 2017
418
15

Nuclear lamin-A scales with tissue stiffness and enhances matrix-directed differentiation.
Joe Swift, Irena L Ivanovska, Amnon Buxboim, Takamasa Harada, P C Dave P Dingal, Joel Pinter, J David Pajerowski, Kyle R Spinler, Jae-Won Shin, Manorama Tewari,[...]. Science 2013
951
14

Formation of Chromosomal Domains by Loop Extrusion.
Geoffrey Fudenberg, Maxim Imakaev, Carolyn Lu, Anton Goloborodko, Nezar Abdennur, Leonid A Mirny. Cell Rep 2016
693
14

Single-cell Hi-C reveals cell-to-cell variability in chromosome structure.
Takashi Nagano, Yaniv Lubling, Tim J Stevens, Stefan Schoenfelder, Eitan Yaffe, Wendy Dean, Ernest D Laue, Amos Tanay, Peter Fraser. Nature 2013
763
13

Lamin B1 depletion in senescent cells triggers large-scale changes in gene expression and the chromatin landscape.
Parisha P Shah, Greg Donahue, Gabriel L Otte, Brian C Capell, David M Nelson, Kajia Cao, Varun Aggarwala, Hazel A Cruickshanks, Taranjit Singh Rai, Tony McBryan,[...]. Genes Dev 2013
274
13

Coaching from the sidelines: the nuclear periphery in genome regulation.
Abigail Buchwalter, Jeanae M Kaneshiro, Martin W Hetzer. Nat Rev Genet 2019
61
21

Developmentally regulated subnuclear genome reorganization restricts neural progenitor competence in Drosophila.
Minoree Kohwi, Joshua R Lupton, Sen-Lin Lai, Michael R Miller, Chris Q Doe. Cell 2013
107
13

Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes.
Adrian L Sanborn, Suhas S P Rao, Su-Chen Huang, Neva C Durand, Miriam H Huntley, Andrew I Jewett, Ivan D Bochkov, Dharmaraj Chinnappan, Ashok Cutkosky, Jian Li,[...]. Proc Natl Acad Sci U S A 2015
744
13


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
920
12

Super-resolution chromatin tracing reveals domains and cooperative interactions in single cells.
Bogdan Bintu, Leslie J Mateo, Jun-Han Su, Nicholas A Sinnott-Armstrong, Mirae Parker, Seon Kinrot, Kei Yamaya, Alistair N Boettiger, Xiaowei Zhuang. Science 2018
290
12

Initial genomics of the human nucleolus.
Attila Németh, Ana Conesa, Javier Santoyo-Lopez, Ignacio Medina, David Montaner, Bálint Péterfia, Irina Solovei, Thomas Cremer, Joaquin Dopazo, Gernot Längst. PLoS Genet 2010
224
12

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
270
12

Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler.
Yu Chen, Yang Zhang, Yuchuan Wang, Liguo Zhang, Eva K Brinkman, Stephen A Adam, Robert Goldman, Bas van Steensel, Jian Ma, Andrew S Belmont. J Cell Biol 2018
104
12

Subnuclear compartmentalization of immunoglobulin loci during lymphocyte development.
Steven T Kosak, Jane A Skok, Kay L Medina, Roy Riblet, Michelle M Le Beau, Amanda G Fisher, Harinder Singh. Science 2002
532
12

Chromatin decondensation is sufficient to alter nuclear organization in embryonic stem cells.
Pierre Therizols, Robert S Illingworth, Celine Courilleau, Shelagh Boyle, Andrew J Wood, Wendy A Bickmore. Science 2014
159
12

Organizational principles of 3D genome architecture.
M Jordan Rowley, Victor G Corces. Nat Rev Genet 2018
307
12

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
265
12

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
301
12

Recurrent de novo point mutations in lamin A cause Hutchinson-Gilford progeria syndrome.
Maria Eriksson, W Ted Brown, Leslie B Gordon, Michael W Glynn, Joel Singer, Laura Scott, Michael R Erdos, Christiane M Robbins, Tracy Y Moses, Peter Berglund,[...]. Nature 2003
11


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.