A citation-based method for searching scientific literature

Yiwei Liu, Xing Zhang, Robert M Blumenthal, Xiaodong Cheng. Trends Biochem Sci 2013
Times Cited: 63







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



Times Cited
  Times     Co-cited
Similarity


Molecular basis for recognition of methylated and specific DNA sequences by the zinc finger protein Kaiso.
Bethany A Buck-Koehntop, Robyn L Stanfield, Damian C Ekiert, Maria A Martinez-Yamout, H Jane Dyson, Ian A Wilson, Peter E Wright. Proc Natl Acad Sci U S A 2012
71
46

An atomic model of Zfp57 recognition of CpG methylation within a specific DNA sequence.
Yiwei Liu, Hidehiro Toh, Hiroyuki Sasaki, Xing Zhang, Xiaodong Cheng. Genes Dev 2012
88
44

In embryonic stem cells, ZFP57/KAP1 recognize a methylated hexanucleotide to affect chromatin and DNA methylation of imprinting control regions.
Simon Quenneville, Gaetano Verde, Andrea Corsinotti, Adamandia Kapopoulou, Johan Jakobsson, Sandra Offner, Ilaria Baglivo, Paolo V Pedone, Giovanna Grimaldi, Andrea Riccio,[...]. Mol Cell 2011
354
33

Dynamic readers for 5-(hydroxy)methylcytosine and its oxidized derivatives.
Cornelia G Spruijt, Felix Gnerlich, Arne H Smits, Toni Pfaffeneder, Pascal W T C Jansen, Christina Bauer, Martin Münzel, Mirko Wagner, Markus Müller, Fariha Khan,[...]. Cell 2013
663
33

Structural basis for Klf4 recognition of methylated DNA.
Yiwei Liu, Yusuf Olatunde Olanrewaju, Yu Zheng, Hideharu Hashimoto, Robert M Blumenthal, Xing Zhang, Xiaodong Cheng. Nucleic Acids Res 2014
60
35

Conversion of 5-methylcytosine to 5-hydroxymethylcytosine in mammalian DNA by MLL partner TET1.
Mamta Tahiliani, Kian Peng Koh, Yinghua Shen, William A Pastor, Hozefa Bandukwala, Yevgeny Brudno, Suneet Agarwal, Lakshminarayan M Iyer, David R Liu, L Aravind,[...]. Science 2009
30

Human DNA methylomes at base resolution show widespread epigenomic differences.
Ryan Lister, Mattia Pelizzola, Robert H Dowen, R David Hawkins, Gary Hon, Julian Tonti-Filippini, Joseph R Nery, Leonard Lee, Zhen Ye, Que-Minh Ngo,[...]. Nature 2009
28

Wilms tumor protein recognizes 5-carboxylcytosine within a specific DNA sequence.
Hideharu Hashimoto, Yusuf Olatunde Olanrewaju, Yu Zheng, Geoffrey G Wilson, Xing Zhang, Xiaodong Cheng. Genes Dev 2014
79
28

MeCP2 binding to DNA depends upon hydration at methyl-CpG.
Kok Lian Ho, Iain W McNae, Lars Schmiedeberg, Robert J Klose, Adrian P Bird, Malcolm D Walkinshaw. Mol Cell 2008
185
25

Tet proteins can convert 5-methylcytosine to 5-formylcytosine and 5-carboxylcytosine.
Shinsuke Ito, Li Shen, Qing Dai, Susan C Wu, Leonard B Collins, James A Swenberg, Chuan He, Yi Zhang. Science 2011
23

Impact of cytosine methylation on DNA binding specificities of human transcription factors.
Yimeng Yin, Ekaterina Morgunova, Arttu Jolma, Eevi Kaasinen, Biswajyoti Sahu, Syed Khund-Sayeed, Pratyush K Das, Teemu Kivioja, Kashyap Dave, Fan Zhong,[...]. Science 2017
410
23

DNA methylation presents distinct binding sites for human transcription factors.
Shaohui Hu, Jun Wan, Yijing Su, Qifeng Song, Yaxue Zeng, Ha Nam Nguyen, Jaehoon Shin, Eric Cox, Hee Sool Rho, Crystal Woodard,[...]. Elife 2013
201
22

Tet-mediated formation of 5-carboxylcytosine and its excision by TDG in mammalian DNA.
Yu-Fei He, Bin-Zhong Li, Zheng Li, Peng Liu, Yang Wang, Qingyu Tang, Jianping Ding, Yingying Jia, Zhangcheng Chen, Lin Li,[...]. Science 2011
22

Sequence-specific recognition of methylated DNA by human zinc-finger proteins.
Nobuhiro Sasai, Mitsuyoshi Nakao, Pierre-Antoine Defossez. Nucleic Acids Res 2010
75
22

The p120 catenin partner Kaiso is a DNA methylation-dependent transcriptional repressor.
A Prokhortchouk, B Hendrich, H Jørgensen, A Ruzov, M Wilm, G Georgiev, A Bird, E Prokhortchouk. Genes Dev 2001
331
20

Methylation-dependent and -independent genomic targeting principles of the MBD protein family.
Tuncay Baubec, Robert Ivánek, Florian Lienert, Dirk Schübeler. Cell 2013
207
20

The p120(ctn)-binding partner Kaiso is a bi-modal DNA-binding protein that recognizes both a sequence-specific consensus and methylated CpG dinucleotides.
Juliet M Daniel, Christopher M Spring, Howard C Crawford, Albert B Reynolds, Akeel Baig. Nucleic Acids Res 2002
176
19





Genomic DNA methylation: the mark and its mediators.
Robert J Klose, Adrian P Bird. Trends Biochem Sci 2006
19

Structural Basis for the Versatile and Methylation-Dependent Binding of CTCF to DNA.
Hideharu Hashimoto, Dongxue Wang, John R Horton, Xing Zhang, Victor G Corces, Xiaodong Cheng. Mol Cell 2017
103
19

DNA methylation: roles in mammalian development.
Zachary D Smith, Alexander Meissner. Nat Rev Genet 2013
17

Transcription factors as readers and effectors of DNA methylation.
Heng Zhu, Guohua Wang, Jiang Qian. Nat Rev Genet 2016
243
17

A family of human zinc finger proteins that bind methylated DNA and repress transcription.
Guillaume J P Filion, Svetlana Zhenilo, Sergey Salozhin, Daisuke Yamada, Egor Prokhortchouk, Pierre-Antoine Defossez. Mol Cell Biol 2006
200
15

A maternal-zygotic effect gene, Zfp57, maintains both maternal and paternal imprints.
Xiajun Li, Mitsuteru Ito, Fen Zhou, Neil Youngson, Xiaopan Zuo, Philip Leder, Anne C Ferguson-Smith. Dev Cell 2008
399
15


PHENIX: a comprehensive Python-based system for macromolecular structure solution.
Paul D Adams, Pavel V Afonine, Gábor Bunkóczi, Vincent B Chen, Ian W Davis, Nathaniel Echols, Jeffrey J Headd, Li-Wei Hung, Gary J Kapral, Ralf W Grosse-Kunstleve,[...]. Acta Crystallogr D Biol Crystallogr 2010
15

Structural basis of the versatile DNA recognition ability of the methyl-CpG binding domain of methyl-CpG binding domain protein 4.
Junji Otani, Kyohei Arita, Tsuyoshi Kato, Mariko Kinoshita, Hironobu Kimura, Isao Suetake, Shoji Tajima, Mariko Ariyoshi, Masahiro Shirakawa. J Biol Chem 2013
47
21

Global epigenomic reconfiguration during mammalian brain development.
Ryan Lister, Eran A Mukamel, Joseph R Nery, Mark Urich, Clare A Puddifoot, Nicholas D Johnson, Jacinta Lucero, Yun Huang, Andrew J Dwork, Matthew D Schultz,[...]. Science 2013
15

Evolving insights on how cytosine methylation affects protein-DNA binding.
Ana Carolina Dantas Machado, Tianyin Zhou, Satyanarayan Rao, Pragya Goel, Chaitanya Rastogi, Allan Lazarovici, Harmen J Bussemaker, Remo Rohs. Brief Funct Genomics 2015
60
16


Recognition of methylated DNA through methyl-CpG binding domain proteins.
Xueqing Zou, Wen Ma, Ilia A Solov'yov, Christophe Chipot, Klaus Schulten. Nucleic Acids Res 2012
69
14

Hypomethylation of multiple imprinted loci in individuals with transient neonatal diabetes is associated with mutations in ZFP57.
Deborah J G Mackay, Jonathan L A Callaway, Sophie M Marks, Helen E White, Carlo L Acerini, Susanne E Boonen, Pinar Dayanikli, Helen V Firth, Judith A Goodship, Andreas P Haemers,[...]. Nat Genet 2008
337
14



Solution structure of the methyl-CpG binding domain of human MBD1 in complex with methylated DNA.
I Ohki, N Shimotake, N Fujita, J Jee, T Ikegami, M Nakao, M Shirakawa. Cell 2001
215
14

Features and development of Coot.
P Emsley, B Lohkamp, W G Scott, K Cowtan. Acta Crystallogr D Biol Crystallogr 2010
14

Detecting and interpreting DNA methylation marks.
Ren Ren, John R Horton, Xing Zhang, Robert M Blumenthal, Xiaodong Cheng. Curr Opin Struct Biol 2018
19
47

Phaser crystallographic software.
Airlie J McCoy, Ralf W Grosse-Kunstleve, Paul D Adams, Martyn D Winn, Laurent C Storoni, Randy J Read. J Appl Crystallogr 2007
12

Zinc finger protein ZFP57 requires its co-factor to recruit DNA methyltransferases and maintains DNA methylation imprint in embryonic stem cells via its transcriptional repression domain.
Xiaopan Zuo, Jipo Sheng, Ho-Tak Lau, Carol M McDonald, Monica Andrade, Dana E Cullen, Fong T Bell, Michelina Iacovino, Michael Kyba, Guoliang Xu,[...]. J Biol Chem 2012
115
12

Structure of DNMT1-DNA complex reveals a role for autoinhibition in maintenance DNA methylation.
Jikui Song, Olga Rechkoblit, Timothy H Bestor, Dinshaw J Patel. Science 2011
255
12

Structural basis for recognition of hemi-methylated DNA by the SRA domain of human UHRF1.
George V Avvakumov, John R Walker, Sheng Xue, Yanjun Li, Shili Duan, Christian Bronner, Cheryl H Arrowsmith, Sirano Dhe-Paganon. Nature 2008
316
12


Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome.
Miao Yu, Gary C Hon, Keith E Szulwach, Chun-Xiao Song, Liang Zhang, Audrey Kim, Xuekun Li, Qing Dai, Yin Shen, Beomseok Park,[...]. Cell 2012
671
12

Multiparametric scaling of diffraction intensities.
Zbyszek Otwinowski, Dominika Borek, Wladyslaw Majewski, Wladek Minor. Acta Crystallogr A 2003
366
12


The SRA protein Np95 mediates epigenetic inheritance by recruiting Dnmt1 to methylated DNA.
Jafar Sharif, Masahiro Muto, Shin-ichiro Takebayashi, Isao Suetake, Akihiro Iwamatsu, Takaho A Endo, Jun Shinga, Yoko Mizutani-Koseki, Tetsuro Toyoda, Kunihiro Okamura,[...]. Nature 2007
791
12

Non-CpG methylation is prevalent in embryonic stem cells and may be mediated by DNA methyltransferase 3a.
B H Ramsahoye, D Biniszkiewicz, F Lyko, V Clark, A P Bird, R Jaenisch. Proc Natl Acad Sci U S A 2000
629
12


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.