A citation-based method for searching scientific literature

Lovisa E Reinius, Nathalie Acevedo, Maaike Joerink, Göran Pershagen, Sven-Erik Dahlén, Dario Greco, Cilla Söderhäll, Annika Scheynius, Juha Kere. PLoS One 2012
Times Cited: 631







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



Times Cited
  Times     Co-cited
Similarity


DNA methylation arrays as surrogate measures of cell mixture distribution.
Eugene Andres Houseman, William P Accomando, Devin C Koestler, Brock C Christensen, Carmen J Marsit, Heather H Nelson, John K Wiencke, Karl T Kelsey. BMC Bioinformatics 2012
57

Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays.
Martin J Aryee, Andrew E Jaffe, Hector Corrada-Bravo, Christine Ladd-Acosta, Andrew P Feinberg, Kasper D Hansen, Rafael A Irizarry. Bioinformatics 2014
35


Genome-wide methylation profiles reveal quantitative views of human aging rates.
Gregory Hannum, Justin Guinney, Ling Zhao, Li Zhang, Guy Hughes, SriniVas Sadda, Brandy Klotzle, Marina Bibikova, Jian-Bing Fan, Yuan Gao,[...]. Mol Cell 2013
20


limma powers differential expression analyses for RNA-sequencing and microarray studies.
Matthew E Ritchie, Belinda Phipson, Di Wu, Yifang Hu, Charity W Law, Wei Shi, Gordon K Smyth. Nucleic Acids Res 2015
15

Adjusting batch effects in microarray expression data using empirical Bayes methods.
W Evan Johnson, Cheng Li, Ariel Rabinovic. Biostatistics 2007
15

Discovery of cross-reactive probes and polymorphic CpGs in the Illumina Infinium HumanMethylation450 microarray.
Yi-an Chen, Mathieu Lemire, Sanaa Choufani, Darci T Butcher, Daria Grafodatskaya, Brent W Zanke, Steven Gallinger, Thomas J Hudson, Rosanna Weksberg. Epigenetics 2013
821
14

A coherent approach for analysis of the Illumina HumanMethylation450 BeadChip improves data quality and performance in epigenome-wide association studies.
Benjamin Lehne, Alexander W Drong, Marie Loh, Weihua Zhang, William R Scott, Sian-Tsung Tan, Uzma Afzal, James Scott, Marjo-Riitta Jarvelin, Paul Elliott,[...]. Genome Biol 2015
152
12

DNA Methylation in Newborns and Maternal Smoking in Pregnancy: Genome-wide Consortium Meta-analysis.
Bonnie R Joubert, Janine F Felix, Paul Yousefi, Kelly M Bakulski, Allan C Just, Carrie Breton, Sarah E Reese, Christina A Markunas, Rebecca C Richmond, Cheng-Jian Xu,[...]. Am J Hum Genet 2016
376
11

Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis.
Pan Du, Xiao Zhang, Chiang-Ching Huang, Nadereh Jafari, Warren A Kibbe, Lifang Hou, Simon M Lin. BMC Bioinformatics 2010
997
11

A data-driven approach to preprocessing Illumina 450K methylation array data.
Ruth Pidsley, Chloe C Y Wong, Manuela Volta, Katie Lunnon, Jonathan Mill, Leonard C Schalkwyk. BMC Genomics 2013
498
10


Epigenome-wide association data implicate DNA methylation as an intermediary of genetic risk in rheumatoid arthritis.
Yun Liu, Martin J Aryee, Leonid Padyukov, M Daniele Fallin, Espen Hesselberg, Arni Runarsson, Lovisa Reinius, Nathalie Acevedo, Margaret Taub, Marcus Ronninger,[...]. Nat Biotechnol 2013
564
9

DNA methylation of cord blood cell types: Applications for mixed cell birth studies.
Kelly M Bakulski, Jason I Feinberg, Shan V Andrews, Jack Yang, Shannon Brown, Stephanie L McKenney, Frank Witter, Jeremy Walston, Andrew P Feinberg, M Daniele Fallin. Epigenetics 2016
158
9

450K epigenome-wide scan identifies differential DNA methylation in newborns related to maternal smoking during pregnancy.
Bonnie R Joubert, Siri E Håberg, Roy M Nilsen, Xuting Wang, Stein E Vollset, Susan K Murphy, Zhiqing Huang, Cathrine Hoyo, Øivind Midttun, Lea A Cupul-Uicab,[...]. Environ Health Perspect 2012
461
9

A beta-mixture quantile normalization method for correcting probe design bias in Illumina Infinium 450 k DNA methylation data.
Andrew E Teschendorff, Francesco Marabita, Matthias Lechner, Thomas Bartlett, Jesper Tegner, David Gomez-Cabrero, Stephan Beck. Bioinformatics 2013
739
9

The sva package for removing batch effects and other unwanted variation in high-throughput experiments.
Jeffrey T Leek, W Evan Johnson, Hilary S Parker, Andrew E Jaffe, John D Storey. Bioinformatics 2012
9

High density DNA methylation array with single CpG site resolution.
Marina Bibikova, Bret Barnes, Chan Tsan, Vincent Ho, Brandy Klotzle, Jennie M Le, David Delano, Lu Zhang, Gary P Schroth, Kevin L Gunderson,[...]. Genomics 2011
9

De novo identification of differentially methylated regions in the human genome.
Timothy J Peters, Michael J Buckley, Aaron L Statham, Ruth Pidsley, Katherine Samaras, Reginald V Lord, Susan J Clark, Peter L Molloy. Epigenetics Chromatin 2015
338
8

A comparison of reference-based algorithms for correcting cell-type heterogeneity in Epigenome-Wide Association Studies.
Andrew E Teschendorff, Charles E Breeze, Shijie C Zheng, Stephan Beck. BMC Bioinformatics 2017
99
8


An optimized library for reference-based deconvolution of whole-blood biospecimens assayed using the Illumina HumanMethylationEPIC BeadArray.
Lucas A Salas, Devin C Koestler, Rondi A Butler, Helen M Hansen, John K Wiencke, Karl T Kelsey, Brock C Christensen. Genome Biol 2018
59
13

Blood-based profiles of DNA methylation predict the underlying distribution of cell types: a validation analysis.
Devin C Koestler, Brock Christensen, Margaret R Karagas, Carmen J Marsit, Scott M Langevin, Karl T Kelsey, John K Wiencke, E Andres Houseman. Epigenetics 2013
149
8

Integrative analysis of 111 reference human epigenomes.
Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi-Moussavi, Pouya Kheradpour, Zhizhuo Zhang, Jianrong Wang, Michael J Ziller,[...]. Nature 2015
7

DNA methylation in childhood asthma: an epigenome-wide meta-analysis.
Cheng-Jian Xu, Cilla Söderhäll, Mariona Bustamante, Nour Baïz, Olena Gruzieva, Ulrike Gehring, Dan Mason, Leda Chatzi, Mikel Basterrechea, Sabrina Llop,[...]. Lancet Respir Med 2018
98
7

Epigenome-wide meta-analysis of DNA methylation and childhood asthma.
Sarah E Reese, Cheng-Jian Xu, Herman T den Dekker, Mi Kyeong Lee, Sinjini Sikdar, Carlos Ruiz-Arenas, Simon K Merid, Faisal I Rezwan, Christian M Page, Vilhelmina Ullemar,[...]. J Allergy Clin Immunol 2019
69
10

Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling.
Ruth Pidsley, Elena Zotenko, Timothy J Peters, Mitchell G Lawrence, Gail P Risbridger, Peter Molloy, Susan Van Djik, Beverly Muhlhausler, Clare Stirzaker, Susan J Clark. Genome Biol 2016
378
7

Cohort Profile: The Isle Of Wight Whole Population Birth Cohort (IOWBC).
S Hasan Arshad, John W Holloway, Wilfried Karmaus, Hongmei Zhang, Susan Ewart, Linda Mansfield, Sharon Matthews, Claire Hodgekiss, Graham Roberts, Ramesh Kurukulaaratchy. Int J Epidemiol 2018
45
15

Meta-analysis of epigenome-wide association studies in neonates reveals widespread differential DNA methylation associated with birthweight.
Leanne K Küpers, Claire Monnereau, Gemma C Sharp, Paul Yousefi, Lucas A Salas, Akram Ghantous, Christian M Page, Sarah E Reese, Allen J Wilcox, Darina Czamara,[...]. Nat Commun 2019
45
13


Tobacco smoking leads to extensive genome-wide changes in DNA methylation.
Sonja Zeilinger, Brigitte Kühnel, Norman Klopp, Hansjörg Baurecht, Anja Kleinschmidt, Christian Gieger, Stephan Weidinger, Eva Lattka, Jerzy Adamski, Annette Peters,[...]. PLoS One 2013
455
6

Epigenetic Signatures of Cigarette Smoking.
Roby Joehanes, Allan C Just, Riccardo E Marioni, Luke C Pilling, Lindsay M Reynolds, Pooja R Mandaviya, Weihua Guan, Tao Xu, Cathy E Elks, Stella Aslibekyan,[...]. Circ Cardiovasc Genet 2016
342
6

Reference-free deconvolution of DNA methylation data and mediation by cell composition effects.
E Andres Houseman, Molly L Kile, David C Christiani, Tan A Ince, Karl T Kelsey, Carmen J Marsit. BMC Bioinformatics 2016
107
6

METAL: fast and efficient meta-analysis of genomewide association scans.
Cristen J Willer, Yun Li, Gonçalo R Abecasis. Bioinformatics 2010
6


Charting a dynamic DNA methylation landscape of the human genome.
Michael J Ziller, Hongcang Gu, Fabian Müller, Julie Donaghey, Linus T-Y Tsai, Oliver Kohlbacher, Philip L De Jager, Evan D Rosen, David A Bennett, Bradley E Bernstein,[...]. Nature 2013
768
6

Comprehensive analysis of DNA methylation data with RnBeads.
Yassen Assenov, Fabian Müller, Pavlo Lutsik, Jörn Walter, Thomas Lengauer, Christoph Bock. Nat Methods 2014
365
6

missMethyl: an R package for analyzing data from Illumina's HumanMethylation450 platform.
Belinda Phipson, Jovana Maksimovic, Alicia Oshlack. Bioinformatics 2016
218
6

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
6

GoldenGate assay for DNA methylation profiling.
Marina Bibikova, Jian-Bing Fan. Methods Mol Biol 2009
104
6

A simple salting out procedure for extracting DNA from human nucleated cells.
S A Miller, D D Dykes, H F Polesky. Nucleic Acids Res 1988
6

Disease variants alter transcription factor levels and methylation of their binding sites.
Marc Jan Bonder, René Luijk, Daria V Zhernakova, Matthijs Moed, Patrick Deelen, Martijn Vermaat, Maarten van Iterson, Freerk van Dijk, Michiel van Galen, Jan Bot,[...]. Nat Genet 2017
201
6

Robust enumeration of cell subsets from tissue expression profiles.
Aaron M Newman, Chih Long Liu, Michael R Green, Andrew J Gentles, Weiguo Feng, Yue Xu, Chuong D Hoang, Maximilian Diehn, Ash A Alizadeh. Nat Methods 2015
6

Epigenetic differences arise during the lifetime of monozygotic twins.
Mario F Fraga, Esteban Ballestar, Maria F Paz, Santiago Ropero, Fernando Setien, Maria L Ballestar, Damia Heine-Suñer, Juan C Cigudosa, Miguel Urioste, Javier Benitez,[...]. Proc Natl Acad Sci U S A 2005
6

Associating cellular epigenetic models with human phenotypes.
Tuuli Lappalainen, John M Greally. Nat Rev Genet 2017
129
6

Genetic and environmental influences interact with age and sex in shaping the human methylome.
Jenny van Dongen, Michel G Nivard, Gonneke Willemsen, Jouke-Jan Hottenga, Quinta Helmer, Conor V Dolan, Erik A Ehli, Gareth E Davies, Maarten van Iterson, Charles E Breeze,[...]. Nat Commun 2016
138
5

Differences in smoking associated DNA methylation patterns in South Asians and Europeans.
Hannah R Elliott, Therese Tillin, Wendy L McArdle, Karen Ho, Aparna Duggirala, Tim M Frayling, George Davey Smith, Alun D Hughes, Nish Chaturvedi, Caroline L Relton. Clin Epigenetics 2014
146
5

Differential methylation between ethnic sub-groups reflects the effect of genetic ancestry and environmental exposures.
Joshua M Galanter, Christopher R Gignoux, Sam S Oh, Dara Torgerson, Maria Pino-Yanes, Neeta Thakur, Celeste Eng, Donglei Hu, Scott Huntsman, Harold J Farber,[...]. Elife 2017
66
7

Distinct DNA methylomes of newborns and centenarians.
Holger Heyn, Ning Li, Humberto J Ferreira, Sebastian Moran, David G Pisano, Antonio Gomez, Javier Diez, Jose V Sanchez-Mut, Fernando Setien, F Javier Carmona,[...]. Proc Natl Acad Sci U S A 2012
455
5


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.