Most cited papers in RNA and protein synthesis mechanisms
What are the most cited papers in RNA and protein synthesis mechanisms?
The most cited paper in RNA and protein synthesis mechanisms is "Basic local alignment search tool" (Stephen F. Altschul, Warren R. Gish, Webb Miller et al., 1990), with 95,803 citations. Next come "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs" (75,032) and "DNA sequencing with chain-terminating inhibitors" (69,512).
Showing 50 of 100 papers. Every paper with more than 5,704 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 | Gapped BLAST and PSI-BLAST: a new generation of protein database search programs Stephen F. Altschul · Nucleic Acids Research | Sep 1997 | 75,032 |
| 3 | DNA sequencing with chain-terminating inhibitors Frederick Sanger, S. Nicklen, Alan R. Coulson · Proceedings of the National Academy of Sciences | Dec 1977 | 69,512 |
| 4 | CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Julie Thompson, Desmond G. Higgins, Toby J. Gibson · Nucleic Acids Research | 1994 | 65,356 |
| 5 | Fast gapped-read alignment with Bowtie 2 Ben Langmead, Steven L. Salzberg · Nature Methods | 4 Mar 2012 | 62,825 |
| 6 | STAR: ultrafast universal RNA-seq aligner Alexander Yu. Dobin, Carrie Davis, Felix Schlesinger et al. · Bioinformatics | 25 Oct 2012 | 58,026 |
| 7 | MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability Kazutaka Katoh, Daron M. Standley · Molecular Biology and Evolution | 16 Jan 2013 | 50,020 |
| 8 | MUSCLE: multiple sequence alignment with high accuracy and high throughput R. C. Edgar · Nucleic Acids Research | 8 Mar 2004 | 47,285 |
| 9 | Cutadapt removes adapter sequences from high-throughput sequencing reads Marcel Martin · EMBnet journal | 2 May 2011 | 37,060 |
| 10 | A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences Motoo Kimura · Journal of Molecular Evolution | Jun 1980 | 30,129 |
| 11 | HISAT: a fast spliced aligner with low memory requirements Daehwan Kim, Ben Langmead, Steven L. Salzberg · Nature Methods | 9 Mar 2015 | 26,880 |
| 12 | Initial sequencing and analysis of the human genome Eric S. Lander et al. · Nature | Feb 2001 | 24,745 |
| 13 | RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome Bo Li, Colin N. Dewey · BMC Bioinformatics | 4 Aug 2011 | 24,027 |
| 14 | Ultrafast and memory-efficient alignment of short DNA sequences to the human genome Ben Langmead, Cole Trapnell, Mihai Pop et al. · Genome biology | 4 Mar 2009 | 23,344 |
| 15 | HTSeq—a Python framework to work with high-throughput sequencing data Simon Anders, Paul Theodor Pyl, Wolfgang K. Huber · Bioinformatics | 25 Sep 2014 | 23,242 |
| 16 | Full-length transcriptome assembly from RNA-Seq data without a reference genome Manfred G. Grabherr et al. · Nature Biotechnology | 15 May 2011 | 23,028 |
| 17 | An integrated encyclopedia of DNA elements in the human genome Ian Dunham et al. · Nature | Sep 2012 | 19,751 |
| 18 | MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform Kazutaka Katoh · Nucleic Acids Research | 15 Jul 2002 | 18,198 |
| 19 | Minimap2: pairwise alignment for nucleotide sequences Heng Li · Bioinformatics | 4 May 2018 | 17,673 |
| 20 | Scalable molecular dynamics with NAMD James Christopher Phillips, Rosemary Braun, Wei Wang et al. · Journal of Computational Chemistry | 12 Oct 2005 | 17,545 |
| 21 | Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype Daehwan Kim, Joseph M. Paggi, Chanhee Park et al. · Nature Biotechnology | Aug 2019 | 16,558 |
| 22 | FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments Morgan N. Price, Paramvir Dehal, Adam P. Arkin · PLoS ONE | 9 Mar 2010 | 16,398 |
| 23 | Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mpl8 and pUC19 vectors Celeste Yanisch-Perron, Jeffrey Vieira, Joachim W. Messing · Gene | 1985 | 15,189 |
| 24 | MolProbity : all-atom structure validation for macromolecular crystallography Vincent B. Chen, W.B. Arendall, Jeffrey J. Headd et al. · Acta Crystallographica Section D Biological Crystallography | 21 Dec 2009 | 14,901 |
| 25 | A comprehensive set of sequence analysis programs for the VAX John Devereux, Paul E. Haeberli, Oliver Smithies · Nucleic Acids Research | 1984 | 14,432 |
| 26 | A method and server for predicting damaging missense mutations Ivan A. Adzhubei, Steffen Schmidt, Leonid Peshkin et al. · Nature Methods | 30 Mar 2010 | 13,759 |
| 27 | The Sequence of the Human Genome J. Craig Venter et al. · Science | 16 Feb 2001 | 13,717 |
| 28 | Mfold web server for nucleic acid folding and hybridization prediction Michael Zuker · Nucleic Acids Research | 24 Jun 2003 | 13,707 |
| 29 | Prodigal: prokaryotic gene recognition and translation initiation site identification Doug Hyatt, Gwo-Liang Chen, Philip F. LoCascio et al. · BMC Bioinformatics | 8 Mar 2010 | 13,697 |
| 30 | RNA-Seq: a revolutionary tool for transcriptomics Zhong Wang, Mark Gerstein, Michael Snyder · Nature Reviews Genetics | 18 Nov 2008 | 13,619 |
| 31 | WebLogo: A Sequence Logo Generator: Figure 1 Gavin E. Crooks, Gary C. Hon, John‐Marc Chandonia et al. · Genome Research | Jun 2004 | 13,238 |
| 32 | Fast and accurate long-read alignment with Burrows–Wheeler transform Heng Li, Richard M. Durbin · Bioinformatics | 15 Jan 2010 | 13,151 |
| 33 | 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 |
| 34 | AFLP: a new technique for DNA fingerprinting Pieter Vos, René C. J. Hogers, Marjo Bleeker et al. · Nucleic Acids Research | 1995 | 12,461 |
| 35 | Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences Weizhong Li, Adam Godzik · Bioinformatics | 26 May 2006 | 12,422 |
| 36 | TopHat: discovering splice junctions with RNA-Seq Cole Trapnell, Lior S. Pachter, Steven L. Salzberg · Bioinformatics | 16 Mar 2009 | 12,264 |
| 37 | 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 |
| 38 | Labeling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase I Peter W. J. Rigby, Marianne Dieckmann, Carl Rhodes et al. · Journal of Molecular Biology | Jun 1977 | 11,663 |
| 39 | Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nuclei John David Dignam, Russell M. Lebovitz, Robert G. Roeder · Nucleic Acids Research | 11 Mar 1983 | 11,638 |
| 40 | Improved tools for biological sequence comparison. William R. Pearson, David J. Lipman · Proceedings of the National Academy of Sciences | Apr 1988 | 11,369 |
| 41 | tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence Todd M. Lowe, Sean R. Eddy · Nucleic Acids Research | Mar 1997 | 11,330 |
| 42 | Near-optimal probabilistic RNA-seq quantification Nicolas Bray, Harold Pimentel, Páll Melsted et al. · Nature Biotechnology | 4 Apr 2016 | 11,277 |
| 43 | Enzymatic assembly of DNA molecules up to several hundred kilobases Daniel G. Gibson, Lei Young, Ray-Yuan Chuang et al. · Nature Methods | 12 Apr 2009 | 11,139 |
| 44 | Database resources of the National Center for Biotechnology Information: update David Lee Wheeler · Nucleic Acids Research | 17 Dec 2003 | 11,002 |
| 45 | The Human Genome Browser at UCSC W. James Kent, Charles W. Sugnet, Terrence S. Furey et al. · Genome Research | 16 May 2002 | 10,998 |
| 46 | Systematic Evolution of Ligands by Exponential Enrichment: RNA Ligands to Bacteriophage T4 DNA Polymerase Craig Tuerk, Larry Gold · Science | 3 Aug 1990 | 10,507 |
| 47 | InterProScan 5: genome-scale protein function classification PHILIP M. JONES, David Binns, Hsin-Yu Chang et al. · Bioinformatics | 22 Jan 2014 | 10,355 |
| 48 | Tandem repeats finder: a program to analyze DNA sequences Gary Benson · Nucleic Acids Research | 1999 | 10,129 |
| 49 | In vitro selection of RNA molecules that bind specific ligands Andrew D. Ellington, Jack W. Szostak · Nature | Aug 1990 | 9,885 |
| 50 | Velvet: Algorithms for de novo short read assembly using de Bruijn graphs Daniel R. Zerbino, Ewan Birney · Genome Research | 18 Mar 2008 | 9,816 |
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.