A citation-based method for searching scientific literature

Junjie U Guo, Yijing Su, Joo Heon Shin, Jaehoon Shin, Hongda Li, Bin Xie, Chun Zhong, Shaohui Hu, Thuc Le, Guoping Fan, Heng Zhu, Qiang Chang, Yuan Gao, Guo-li Ming, Hongjun Song. Nat Neurosci 2014
Times Cited: 443







List of co-cited articles
1095 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


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
45

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
27

Disruption of DNA-methylation-dependent long gene repression in Rett syndrome.
Harrison W Gabel, Benyam Kinde, Hume Stroud, Caitlin S Gilbert, David A Harmin, Nathaniel R Kastan, Martin Hemberg, Daniel H Ebert, Michael E Greenberg. Nature 2015
321
23

Rett syndrome is caused by mutations in X-linked MECP2, encoding methyl-CpG-binding protein 2.
R E Amir, I B Van den Veyver, M Wan, C Q Tran, U Francke, H Y Zoghbi. Nat Genet 1999
21

MeCP2 binds to non-CG methylated DNA as neurons mature, influencing transcription and the timing of onset for Rett syndrome.
Lin Chen, Kaifu Chen, Laura A Lavery, Steven Andrew Baker, Chad A Shaw, Wei Li, Huda Y Zoghbi. Proc Natl Acad Sci U S A 2015
160
19

MeCP2, a key contributor to neurological disease, activates and represses transcription.
Maria Chahrour, Sung Yun Jung, Chad Shaw, Xiaobo Zhou, Stephen T C Wong, Jun Qin, Huda Y Zoghbi. Science 2008
17

Early-Life Gene Expression in Neurons Modulates Lasting Epigenetic States.
Hume Stroud, Susan C Su, Sinisa Hrvatin, Alexander W Greben, William Renthal, Lisa D Boxer, M Aurel Nagy, Daniel R Hochbaum, Benyam Kinde, Harrison W Gabel,[...]. Cell 2017
98
16

MeCP2 recognizes cytosine methylated tri-nucleotide and di-nucleotide sequences to tune transcription in the mammalian brain.
Sabine Lagger, John C Connelly, Gabriele Schweikert, Shaun Webb, Jim Selfridge, Bernard H Ramsahoye, Miao Yu, Chuan He, Guido Sanguinetti, Lawrence C Sowers,[...]. PLoS Genet 2017
68
23



Base-resolution analyses of sequence and parent-of-origin dependent DNA methylation in the mouse genome.
Wei Xie, Cathy L Barr, Audrey Kim, Feng Yue, Ah Young Lee, James Eubanks, Emma L Dempster, Bing Ren. Cell 2012
346
15

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
15

Non-CG Methylation in the Human Genome.
Yupeng He, Joseph R Ecker. Annu Rev Genomics Hum Genet 2015
117
15

Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain.
Alisa Mo, Eran A Mukamel, Fred P Davis, Chongyuan Luo, Gilbert L Henry, Serge Picard, Mark A Urich, Joseph R Nery, Terrence J Sejnowski, Ryan Lister,[...]. Neuron 2015
353
14

Neuronal MeCP2 is expressed at near histone-octamer levels and globally alters the chromatin state.
Peter J Skene, Robert S Illingworth, Shaun Webb, Alastair R W Kerr, Keith D James, Daniel J Turner, Rob Andrews, Adrian P Bird. Mol Cell 2010
447
14

Genomic distribution and inter-sample variation of non-CpG methylation across human cell types.
Michael J Ziller, Fabian Müller, Jing Liao, Yingying Zhang, Hongcang Gu, Christoph Bock, Patrick Boyle, Charles B Epstein, Bradley E Bernstein, Thomas Lengauer,[...]. PLoS Genet 2011
256
14

Reading the unique DNA methylation landscape of the brain: Non-CpG methylation, hydroxymethylation, and MeCP2.
Benyam Kinde, Harrison W Gabel, Caitlin S Gilbert, Eric C Griffith, Michael E Greenberg. Proc Natl Acad Sci U S A 2015
135
14

5-hmC-mediated epigenetic dynamics during postnatal neurodevelopment and aging.
Keith E Szulwach, Xuekun Li, Yujing Li, Chun-Xiao Song, Hao Wu, Qing Dai, Hasan Irier, Anup K Upadhyay, Marla Gearing, Allan I Levey,[...]. Nat Neurosci 2011
551
14


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
637
14




Single-cell methylomes identify neuronal subtypes and regulatory elements in mammalian cortex.
Chongyuan Luo, Christopher L Keown, Laurie Kurihara, Jingtian Zhou, Yupeng He, Junhao Li, Rosa Castanon, Jacinta Lucero, Joseph R Nery, Justin P Sandoval,[...]. Science 2017
212
13

Transcriptional repression by the methyl-CpG-binding protein MeCP2 involves a histone deacetylase complex.
X Nan, H H Ng, C A Johnson, C D Laherty, B M Turner, R N Eisenman, A Bird. Nature 1998
12

MeCP2 binds to 5hmC enriched within active genes and accessible chromatin in the nervous system.
Marian Mellén, Pinar Ayata, Scott Dewell, Skirmantas Kriaucionis, Nathaniel Heintz. Cell 2012
628
12

Rett syndrome mutations abolish the interaction of MeCP2 with the NCoR/SMRT co-repressor.
Matthew J Lyst, Robert Ekiert, Daniel H Ebert, Cara Merusi, Jakub Nowak, Jim Selfridge, Jacky Guy, Nathaniel R Kastan, Nathaniel D Robinson, Flavia de Lima Alves,[...]. Nat Neurosci 2013
224
11

Neuronal brain-region-specific DNA methylation and chromatin accessibility are associated with neuropsychiatric trait heritability.
Lindsay F Rizzardi, Peter F Hickey, Varenka Rodriguez DiBlasi, Rakel Tryggvadóttir, Colin M Callahan, Adrian Idrizi, Kasper D Hansen, Andrew P Feinberg. Nat Neurosci 2019
57
19


Losing Dnmt3a dependent methylation in inhibitory neurons impairs neural function by a mechanism impacting Rett syndrome.
Laura A Lavery, Kerstin Ure, Ying-Wooi Wan, Chongyuan Luo, Alexander J Trostle, Wei Wang, Haijing Jin, Joanna Lopez, Jacinta Lucero, Mark A Durham,[...]. Elife 2020
17
64

Methylated DNA and MeCP2 recruit histone deacetylase to repress transcription.
P L Jones, G J Veenstra, P A Wade, D Vermaak, S U Kass, N Landsberger, J Strouboulis, A P Wolffe. Nat Genet 1998
10

DNA methylation landscapes: provocative insights from epigenomics.
Miho M Suzuki, Adrian Bird. Nat Rev Genet 2008
10

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
10

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
10


Reversal of neurological defects in a mouse model of Rett syndrome.
Jacky Guy, Jian Gan, Jim Selfridge, Stuart Cobb, Adrian Bird. Science 2007
770
10

Purification, sequence, and cellular localization of a novel chromosomal protein that binds to methylated DNA.
J D Lewis, R R Meehan, W J Henzel, I Maurer-Fogy, P Jeppesen, F Klein, A Bird. Cell 1992
10

A mouse Mecp2-null mutation causes neurological symptoms that mimic Rett syndrome.
J Guy, B Hendrich, M Holmes, J E Martin, A Bird. Nat Genet 2001
10

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
10


Dnmt1 and Dnmt3a maintain DNA methylation and regulate synaptic function in adult forebrain neurons.
Jian Feng, Yu Zhou, Susan L Campbell, Thuc Le, En Li, J David Sweatt, Alcino J Silva, Guoping Fan. Nat Neurosci 2010
658
9

MeCP2 Represses the Rate of Transcriptional Initiation of Highly Methylated Long Genes.
Lisa D Boxer, William Renthal, Alexander W Greben, Tess Whitwam, Andrew Silberfeld, Hume Stroud, Emmy Li, Marty G Yang, Benyam Kinde, Eric C Griffith,[...]. Mol Cell 2020
28
32

Characterization of human mosaic Rett syndrome brain tissue by single-nucleus RNA sequencing.
William Renthal, Lisa D Boxer, Sinisa Hrvatin, Emmy Li, Andrew Silberfeld, M Aurel Nagy, Eric C Griffith, Thomas Vierbuchen, Michael E Greenberg. Nat Neurosci 2018
51
17


Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
9

The evidence for functional non-CpG methylation in mammalian cells.
Vibha Patil, Robyn L Ward, Luke B Hesson. Epigenetics 2014
93
9

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
9



MeCP2 Represses Enhancers through Chromosome Topology-Associated DNA Methylation.
Adam W Clemens, Dennis Y Wu, J Russell Moore, Diana L Christian, Guoyan Zhao, Harrison W Gabel. Mol Cell 2020
25
36


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.