A citation-based method for searching scientific literature

Kris G Alavattam, So Maezawa, Akihiko Sakashita, Haia Khoury, Artem Barski, Noam Kaplan, Satoshi H Namekawa. Nat Struct Mol Biol 2019
Times Cited: 32







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



Times Cited
  Times     Co-cited
Similarity


Dynamic reorganization of the genome shapes the recombination landscape in meiotic prophase.
Lucas Patel, Rhea Kang, Scott C Rosenberg, Yunjiang Qiu, Ramya Raviram, Sora Chee, Rong Hu, Bing Ren, Francesca Cole, Kevin D Corbett. Nat Struct Mol Biol 2019
52
81

Reprogramming of Meiotic Chromatin Architecture during Spermatogenesis.
Yao Wang, Hanben Wang, Yu Zhang, Zhenhai Du, Wei Si, Suixing Fan, Dongdong Qin, Mei Wang, Yanchao Duan, Lufan Li,[...]. Mol Cell 2019
43
71

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
50

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
46

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
43

Three-Dimensional Genomic Structure and Cohesin Occupancy Correlate with Transcriptional Activity during Spermatogenesis.
Covadonga Vara, Andreu Paytuví-Gallart, Yasmina Cuartero, François Le Dily, Francisca Garcia, Judit Salvà-Castro, Laura Gómez-H, Eva Julià, Catia Moutinho, Riccardo Aiese Cigliano,[...]. Cell Rep 2019
35
40

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
31

A pathway for mitotic chromosome formation.
Johan H Gibcus, Kumiko Samejima, Anton Goloborodko, Itaru Samejima, Natalia Naumova, Johannes Nuebler, Masato T Kanemaki, Linfeng Xie, James R Paulson, William C Earnshaw,[...]. Science 2018
269
28

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
667
28

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
626
28

Meiotic chromosomes: integrating structure and function.
D Zickler, N Kleckner. Annu Rev Genet 1999
858
25

Characterizing meiotic chromosomes' structure and pairing using a designer sequence optimized for Hi-C.
Héloïse Muller, Vittore F Scolari, Nicolas Agier, Aurèle Piazza, Agnès Thierry, Guillaume Mercy, Stéphane Descorps-Declere, Luciana Lazar-Stefanita, Olivier Espeli, Bertrand Llorente,[...]. Mol Syst Biol 2018
32
25

Organization of the mitotic chromosome.
Natalia Naumova, Maxim Imakaev, Geoffrey Fudenberg, Ye Zhan, Bryan R Lajoie, Leonid A Mirny, Job Dekker. Science 2013
517
25

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
467
25

Formation of Chromosomal Domains by Loop Extrusion.
Geoffrey Fudenberg, Maxim Imakaev, Carolyn Lu, Anton Goloborodko, Nezar Abdennur, Leonid A Mirny. Cell Rep 2016
721
25

Genetics of mammalian meiosis: regulation, dynamics and impact on fertility.
Mary Ann Handel, John C Schimenti. Nat Rev Genet 2010
298
25


3D Chromatin Structures of Mature Gametes and Structural Reprogramming during Mammalian Embryogenesis.
Yuwen Ke, Yanan Xu, Xuepeng Chen, Songjie Feng, Zhenbo Liu, Yaoyu Sun, Xuelong Yao, Fangzhen Li, Wei Zhu, Lei Gao,[...]. Cell 2017
195
21

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
679
21

Postmeiotic sex chromatin in the male germline of mice.
Satoshi H Namekawa, Peter J Park, Li-Feng Zhang, James E Shima, John R McCarrey, Michael D Griswold, Jeannie T Lee. Curr Biol 2006
291
21

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
334
18

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
147
18

Phase separation drives heterochromatin domain formation.
Amy R Strom, Alexander V Emelyanov, Mustafa Mir, Dmitry V Fyodorov, Xavier Darzacq, Gary H Karpen. Nature 2017
729
18

Chromatin States in Mouse Sperm Correlate with Embryonic and Adult Regulatory Landscapes.
Yoon Hee Jung, Michael E G Sauria, Xiaowen Lyu, Manjinder S Cheema, Juan Ausio, James Taylor, Victor G Corces. Cell Rep 2017
121
18

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

STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
18

The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
18

Principles of meiotic chromosome assembly revealed in S. cerevisiae.
Stephanie A Schalbetter, Geoffrey Fudenberg, Jonathan Baxter, Katherine S Pollard, Matthew J Neale. Nat Commun 2019
31
19

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
359
18

Meiotic Silencing in Mammals.
James M A Turner. Annu Rev Genet 2015
87
18

The Mammalian Spermatogenesis Single-Cell Transcriptome, from Spermatogonial Stem Cells to Spermatids.
Brian P Hermann, Keren Cheng, Anukriti Singh, Lorena Roa-De La Cruz, Kazadi N Mutoji, I-Chung Chen, Heidi Gildersleeve, Jake D Lehle, Max Mayo, Birgit Westernströer,[...]. Cell Rep 2018
153
18

Dynamic reorganization of open chromatin underlies diverse transcriptomes during spermatogenesis.
So Maezawa, Masashi Yukawa, Kris G Alavattam, Artem Barski, Satoshi H Namekawa. Nucleic Acids Res 2018
37
18

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
271
15

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
766
15

Real-time imaging of DNA loop extrusion by condensin.
Mahipal Ganji, Indra A Shaltiel, Shveta Bisht, Eugene Kim, Ana Kalichava, Christian H Haering, Cees Dekker. Science 2018
282
15

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
311
15

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
207
15

Transcriptome analysis of highly purified mouse spermatogenic cell populations: gene expression signatures switch from meiotic-to postmeiotic-related processes at pachytene stage.
Irene da Cruz, Rosana Rodríguez-Casuriaga, Federico F Santiñaque, Joaquina Farías, Gianni Curti, Carlos A Capoano, Gustavo A Folle, Ricardo Benavente, José Roberto Sotelo-Silveira, Adriana Geisinger. BMC Genomics 2016
62
15

Meiotic recombination cold spots in chromosomal cohesion sites.
Masaru Ito, Kazuto Kugou, Jeffrey A Fawcett, Sachiko Mura, Sho Ikeda, Hideki Innan, Kunihiro Ohta. Genes Cells 2014
26
19

Meiotic recombination in mammals: localization and regulation.
Frédéric Baudat, Yukiko Imai, Bernard de Massy. Nat Rev Genet 2013
308
15

Chromatin organization at meiosis.
P B Møens, R E Pearlman. Bioessays 1988
78
15


Iterative correction of Hi-C data reveals hallmarks of chromosome organization.
Maxim Imakaev, Geoffrey Fudenberg, Rachel Patton McCord, Natalia Naumova, Anton Goloborodko, Bryan R Lajoie, Job Dekker, Leonid A Mirny. Nat Methods 2012
593
15

Model-based analysis of ChIP-Seq (MACS).
Yong Zhang, Tao Liu, Clifford A Meyer, Jérôme Eeckhoute, David S Johnson, Bradley E Bernstein, Chad Nusbaum, Richard M Myers, Myles Brown, Wei Li,[...]. Genome Biol 2008
15

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
15

Chromatin and transcription transitions of mammalian adult germline stem cells and spermatogenesis.
Saher Sue Hammoud, Diana H P Low, Chongil Yi, Douglas T Carrell, Ernesto Guccione, Bradley R Cairns. Cell Stem Cell 2014
179
15

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
15

The murine testicular transcriptome: characterizing gene expression in the testis during the progression of spermatogenesis.
James E Shima, Derek J McLean, John R McCarrey, Michael D Griswold. Biol Reprod 2004
385
15

A Comprehensive Roadmap of Murine Spermatogenesis Defined by Single-Cell RNA-Seq.
Christopher Daniel Green, Qianyi Ma, Gabriel L Manske, Adrienne Niederriter Shami, Xianing Zheng, Simone Marini, Lindsay Moritz, Caleb Sultan, Stephen J Gurczynski, Bethany B Moore,[...]. Dev Cell 2018
130
15

Flow cytometry purification of mouse meiotic cells.
Irina V Getun, Bivian Torres, Philippe R J Bois. J Vis Exp 2011
45
15


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.