A citation-based method for searching scientific literature

Michael Zuker. Nucleic Acids Res 2003
Times Cited: 8800







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



Times Cited
  Times     Co-cited
Similarity


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
8

Basic local alignment search tool.
S F Altschul, W Gish, W Miller, E W Myers, D J Lipman. J Mol Biol 1990
7


IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies.
Lam-Tung Nguyen, Heiko A Schmidt, Arndt von Haeseler, Bui Quang Minh. Mol Biol Evol 2015
6

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms.
Sudhir Kumar, Glen Stecher, Michael Li, Christina Knyaz, Koichiro Tamura. Mol Biol Evol 2018
6

DINAMelt web server for nucleic acid melting prediction.
Nicholas R Markham, Michael Zuker. Nucleic Acids Res 2005
636
6

RNAstructure: software for RNA secondary structure prediction and analysis.
Jessica S Reuter, David H Mathews. BMC Bioinformatics 2010
960
6

ViennaRNA Package 2.0.
Ronny Lorenz, Stephan H Bernhart, Christian Höner Zu Siederdissen, Hakim Tafer, Christoph Flamm, Peter F Stadler, Ivo L Hofacker. Algorithms Mol Biol 2011
6

Aptamers as targeted therapeutics: current potential and challenges.
Jiehua Zhou, John Rossi. Nat Rev Drug Discov 2017
646
5

VARNA: Interactive drawing and editing of the RNA secondary structure.
Kévin Darty, Alain Denise, Yann Ponty. Bioinformatics 2009
692
5


UNAFold: software for nucleic acid folding and hybridization.
Nicholas R Markham, Michael Zuker. Methods Mol Biol 2008
619
5

The Vienna RNA websuite.
Andreas R Gruber, Ronny Lorenz, Stephan H Bernhart, Richard Neuböck, Ivo L Hofacker. Nucleic Acids Res 2008
5

WebLogo: a sequence logo generator.
Gavin E Crooks, Gary Hon, John-Marc Chandonia, Steven E Brenner. Genome Res 2004
5

Clustal W and Clustal X version 2.0.
M A Larkin, G Blackshields, N P Brown, R Chenna, P A McGettigan, H McWilliam, F Valentin, I M Wallace, A Wilm, R Lopez,[...]. Bioinformatics 2007
5

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
S F Altschul, T L Madden, A A Schäffer, J Zhang, Z Zhang, W Miller, D J Lipman. Nucleic Acids Res 1997
5


Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
5

Aptamers as therapeutics.
Anthony D Keefe, Supriya Pai, Andrew Ellington. Nat Rev Drug Discov 2010
4

miRBase: from microRNA sequences to function.
Ana Kozomara, Maria Birgaoanu, Sam Griffiths-Jones. Nucleic Acids Res 2019
4

psRNATarget: a plant small RNA target analysis server (2017 release).
Xinbin Dai, Zhaohong Zhuang, Patrick Xuechun Zhao. Nucleic Acids Res 2018
354
4

MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space.
Fredrik Ronquist, Maxim Teslenko, Paul van der Mark, Daniel L Ayres, Aaron Darling, Sebastian Höhna, Bret Larget, Liang Liu, Marc A Suchard, John P Huelsenbeck. Syst Biol 2012
4



NUPACK: Analysis and design of nucleic acid systems.
Joseph N Zadeh, Conrad D Steenberg, Justin S Bois, Brian R Wolfe, Marshall B Pierce, Asif R Khan, Robert M Dirks, Niles A Pierce. J Comput Chem 2011
701
4



miRBase: annotating high confidence microRNAs using deep sequencing data.
Ana Kozomara, Sam Griffiths-Jones. Nucleic Acids Res 2014
4

QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences.
Oleg Kikin, Lawrence D'Antonio, Paramjeet S Bagga. Nucleic Acids Res 2006
493
4


MEGA6: Molecular Evolutionary Genetics Analysis version 6.0.
Koichiro Tamura, Glen Stecher, Daniel Peterson, Alan Filipski, Sudhir Kumar. Mol Biol Evol 2013
4


Animal mitochondrial genomes.
J L Boore. Nucleic Acids Res 1999
4

SELEX--a (r)evolutionary method to generate high-affinity nucleic acid ligands.
Regina Stoltenburg, Christine Reinemann, Beate Strehlitz. Biomol Eng 2007
758
3


MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization.
Kazutaka Katoh, John Rozewicki, Kazunori D Yamada. Brief Bioinform 2019
3

Understanding nucleic acid-ion interactions.
Jan Lipfert, Sebastian Doniach, Rhiju Das, Daniel Herschlag. Annu Rev Biochem 2014
209
3

Metazoan MicroRNAs.
David P Bartel. Cell 2018
3

Post-SELEX optimization of aptamers.
Shunxiang Gao, Xin Zheng, Binghua Jiao, Lianghua Wang. Anal Bioanal Chem 2016
69
4

Analysis of thermal melting curves.
Jean-Louis Mergny, Laurent Lacroix. Oligonucleotides 2003
466
3


The non-Watson-Crick base pairs and their associated isostericity matrices.
Neocles B Leontis, Jesse Stombaugh, Eric Westhof. Nucleic Acids Res 2002
526
3

The HADDOCK2.2 Web Server: User-Friendly Integrative Modeling of Biomolecular Complexes.
G C P van Zundert, J P G L M Rodrigues, M Trellet, C Schmitz, P L Kastritis, E Karaca, A S J Melquiond, M van Dijk, S J de Vries, A M J J Bonvin. J Mol Biol 2016
977
3

Recent Advances in SELEX Technology and Aptamer Applications in Biomedicine.
Zhenjian Zhuo, Yuanyuan Yu, Maolin Wang, Jie Li, Zongkang Zhang, Jin Liu, Xiaohao Wu, Aiping Lu, Ge Zhang, Baoting Zhang. Int J Mol Sci 2017
124
3

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega.
Fabian Sievers, Andreas Wilm, David Dineen, Toby J Gibson, Kevin Karplus, Weizhong Li, Rodrigo Lopez, Hamish McWilliam, Michael Remmert, Johannes Söding,[...]. Mol Syst Biol 2011
3

Sequence logos: a new way to display consensus sequences.
T D Schneider, R M Stephens. Nucleic Acids Res 1990
3


trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses.
Salvador Capella-Gutiérrez, José M Silla-Martínez, Toni Gabaldón. Bioinformatics 2009
3

SELEX methods on the road to protein targeting with nucleic acid aptamers.
Payam Bayat, Rahim Nosrati, Mona Alibolandi, Houshang Rafatpanah, Khalil Abnous, Mostafa Khedri, Mohammad Ramezani. Biochimie 2018
68
4



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.