Topic · Genomics and Chromatin Dynamics
Most cited papers in Genomics and Chromatin Dynamics
What are the most cited papers in Genomics and Chromatin Dynamics?
The most cited paper in Genomics and Chromatin Dynamics is "Basic local alignment search tool" (Stephen F. Altschul, Warren R. Gish, Webb Miller et al., 1990), with 95,803 citations. Next come "Initial sequencing and analysis of the human genome" (24,745) and "Model-based Analysis of ChIP-Seq (MACS)" (20,527).
Showing 50 of 100 papers. Every paper with more than 2,920 citations is listed.
| # | Paper | ||
|---|---|---|---|
| 1 | Basic local alignment search tool Stephen F. Altschul, Warren R. Gish, Webb Miller et al. · Journal of Molecular Biology | Oct 1990 | 95,803 |
| 2 | Initial sequencing and analysis of the human genome Eric S. Lander et al. · Nature | Feb 2001 | 24,745 |
| 3 | Model-based Analysis of ChIP-Seq (MACS) Yong Zhang, Tao Liu, Clifford A. Meyer et al. · Genome biology | 17 Sep 2008 | 20,527 |
| 4 | An integrated encyclopedia of DNA elements in the human genome Ian Dunham et al. · Nature | Sep 2012 | 19,751 |
| 5 | Molecular portraits of human breast tumours Charles M. Perou, Thérese Sørlie, Michael B. Eisen et al. · Nature | 17 Aug 2000 | 16,552 |
| 6 | The Sequence of the Human Genome J. Craig Venter et al. · Science | 16 Feb 2001 | 13,717 |
| 7 | A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff Pablo Cingolani, Adrian E. Platts, Le Lily Wang et al. · Fly | Apr 2012 | 12,997 |
| 8 | MEME SUITE: tools for motif discovery and searching Timothy L. Bailey, Mikael Bodén, Fabian A. Buske et al. · Nucleic Acids Research | 20 May 2009 | 11,719 |
| 9 | Complex heatmaps reveal patterns and correlations in multidimensional genomic data Zuguang Gu, Roland Eils, Matthias Schlesner · Bioinformatics | 20 May 2016 | 11,317 |
| 10 | Chromatin Modifications and Their Function Tony Kouzarides · Cell | Feb 2007 | 10,979 |
| 11 | Significance analysis of microarrays applied to the ionizing radiation response Virginia Goss Tusher, Robert John Tibshirani, Gilbert Chu · Proceedings of the National Academy of Sciences | 17 Apr 2001 | 10,744 |
| 12 | 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 et al. · Cell | Dec 2014 | 10,225 |
| 13 | Statistical significance for genomewide studies John D. Storey, Robert John Tibshirani · Proceedings of the National Academy of Sciences | 25 Jul 2003 | 10,199 |
| 14 | Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling Ash A. Alizadeh et al. · Nature | Feb 2000 | 10,021 |
| 15 | Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome Erez Lieberman-Aiden, Nynke L. van Berkum, Louise Williams et al. · Science | 8 Oct 2009 | 9,848 |
| 16 | Translating the Histone Code Thomas Jenuwein, C. David Allis · Science | 10 Aug 2001 | 9,803 |
| 17 | Crystal structure of the nucleosome core particle at 2.8 Å resolution Karolin Luger, Armin W. Mäder, Robin K. Richmond et al. · Nature | Sep 1997 | 9,627 |
| 18 | The language of covalent histone modifications Brian D. Strahl, C. David Allis · Nature | 2000 | 8,728 |
| 19 | PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences Magali Lescot · Nucleic Acids Research | 2002 | 8,702 |
| 20 | A comparison of normalization methods for high density oligonucleotide array data based on variance and bias Benjamin M. Bolstad, Rafael A. Irizarry, Magnus Åstrand et al. · Bioinformatics | 21 Jan 2003 | 8,511 |
| 21 | The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells Cole Trapnell, Davide Cacchiarelli, Jonna Grimsby et al. · Nature Biotechnology | 23 Mar 2014 | 8,179 |
| 22 | Topological domains in mammalian genomes identified by analysis of chromatin interactions Jesse R. Dixon, Siddarth Selvaraj, Feng Yue et al. · Nature | 10 Apr 2012 | 7,584 |
| 23 | DNA methylation age of human tissues and cell types Steve Horvath · Genome biology | 20 Oct 2013 | 7,572 |
| 24 | Initial sequencing and comparative analysis of the mouse genome Asif T. Chinwalla et al. · Nature | Dec 2002 | 7,343 |
| 25 | Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position Jason Daniel Buenrostro, Paul G. Giresi, Lisa C. Zaba et al. · Nature Methods | 6 Oct 2013 | 7,255 |
| 26 | Integrative analysis of 111 reference human epigenomes Anshul Kundaje et al. · Nature | 17 Feb 2015 | 7,245 |
| 27 | DNA methylation patterns and epigenetic memory Adrian Peter Bird · Genes & Development | 2002 | 7,213 |
| 28 | High-Resolution Profiling of Histone Methylations in the Human Genome Artem Barski, Suresh Cuddapah, Kairong Cui et al. · Cell | May 2007 | 7,037 |
| 29 | A general framework for estimating the relative pathogenicity of human genetic variants Martin Kircher, Daniela Witten, Preti Jain et al. · Nature Genetics | 2 Feb 2014 | 6,711 |
| 30 | Functions of DNA methylation: islands, start sites, gene bodies and beyond Peter Anthony Jones · Nature Reviews Genetics | 29 May 2012 | 6,369 |
| 31 | The GTEx Consortium atlas of genetic regulatory effects across human tissues François Aguet et al. · Science | 10 Sep 2020 | 6,192 |
| 32 | Regulation of chromatin by histone modifications Andrew J. Bannister, Tony Kouzarides · Cell Research | 15 Feb 2011 | 6,138 |
| 33 | Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications Felix Krueger, Simon Andrews · Bioinformatics | 14 Apr 2011 | 6,026 |
| 34 | Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation Davis James McCarthy, Yunshun Chen, Gordon K. Smyth · Nucleic Acids Research | 28 Jan 2012 | 5,910 |
| 35 | The MEME Suite Timothy L. Bailey, James Johnson, Charles E. Grant et al. · Nucleic Acids Research | 7 May 2015 | 5,762 |
| 36 | The fundamental role of epigenetic events in cancer Peter Anthony Jones, Stephen B. Baylin · Nature Reviews Genetics | Jun 2002 | 5,697 |
| 37 | A Bivalent Chromatin Structure Marks Key Developmental Genes in Embryonic Stem Cells B Bernstein, Tarjei S. Mikkelsen, Xiaohui S. Xie et al. · Cell | Apr 2006 | 5,522 |
| 38 | DNA Double-stranded Breaks Induce Histone H2AX Phosphorylation on Serine 139 Emmy P. Rogakou, Duane R. Pilch, Ann H. Orr et al. · Journal of Biological Chemistry | Mar 1998 | 5,501 |
| 39 | affy—analysis of Affymetrix GeneChip data at the probe level Laurent Gautier, Leslie Cope, Benjamin M. Bolstad et al. · Bioinformatics | 11 Feb 2004 | 5,481 |
| 40 | Landscape of transcription in human cells Sarah Djebali et al. · Nature | Sep 2012 | 5,447 |
| 41 | Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project Ewan Birney et al. · Nature | Jun 2007 | 5,310 |
| 42 | The zebrafish reference genome sequence and its relationship to the human genome Kerstin Howe et al. · Nature | 16 Apr 2013 | 5,261 |
| 43 | Prediction of Mammalian MicroRNA Targets Benjamin P. Lewis, I‐hung Shih, Matthew W. Jones-Rhoades et al. · Cell | Dec 2003 | 5,238 |
| 44 | Software for Computing and Annotating Genomic Ranges Michael F. Lawrence, Wolfgang K. Huber, Hervé Pagès et al. · PLoS Computational Biology | 8 Aug 2013 | 5,146 |
| 45 | Fitting a mixture model by expectation maximization to discover motifs in biopolymers. Trisha L. Bailey, Charles Elkan · PubMed | 1994 | 5,115 |
| 46 | GREAT improves functional interpretation of cis-regulatory regions Cory Y. McLean, Dave Bristor, Michael Hiller et al. · Nature Biotechnology | May 2010 | 5,105 |
| 47 | FIMO: scanning for occurrences of a given motif Charles E. Grant, Timothy L. Bailey, William Stafford Noble · Bioinformatics | 16 Feb 2011 | 5,063 |
| 48 | Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays Martin J. Aryee, Andrew E. Jaffe, Héctor Corrada Bravo et al. · Bioinformatics | 28 Jan 2014 | 4,956 |
| 49 | Generalized lacZ expression with the ROSA26 Cre reporter strain Philippe M. Soriano · Nature Genetics | 1999 | 4,935 |
| 50 | ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization Guangchuang Yu, Li-Gen Wang, Qing‐Yu He · Bioinformatics | 11 Mar 2015 | 4,931 |
Citations are OpenAlex's own counts, from its 2026-09-23 snapshot, so the ranking can differ from Google Scholar or Web of Science. A paper is listed for a field when OpenAlex files it under one of the field's topics; retracted papers and papers whose citation count cannot be traced to citing works are left out, and a preprint and the article it became are shown once. Release dates are OpenAlex's: where a source gave only a month or a year, that is what is shown. How the lists are chosen.