A citation-based method for searching scientific literature

William F Porto, Octávio L Franco, Sérgio A Alencar. Peptides 2015
Times Cited: 17







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



Times Cited
  Times     Co-cited
Similarity


GROMACS 4:  Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation.
Berk Hess, Carsten Kutzner, David van der Spoel, Erik Lindahl. J Chem Theory Comput 2008
70



Predicting the functional impact of protein mutations: application to cancer genomics.
Boris Reva, Yevgeniy Antipin, Chris Sander. Nucleic Acids Res 2011
47

PoPMuSiC 2.1: a web server for the estimation of protein stability changes upon mutation and sequence optimality.
Yves Dehouck, Jean Marc Kwasigroch, Dimitri Gilis, Marianne Rooman. BMC Bioinformatics 2011
257
47

A method and server for predicting damaging missense mutations.
Ivan A Adzhubei, Steffen Schmidt, Leonid Peshkin, Vasily E Ramensky, Anna Gerasimova, Peer Bork, Alexey S Kondrashov, Shamil R Sunyaev. Nat Methods 2010
47

Collective judgment predicts disease-associated single nucleotide variants.
Emidio Capriotti, Russ B Altman, Yana Bromberg. BMC Genomics 2013
125
47



PredictSNP: robust and accurate consensus classifier for prediction of disease-related mutations.
Jaroslav Bendl, Jan Stourac, Ondrej Salanda, Antonin Pavelka, Eric D Wieben, Jaroslav Zendulka, Jan Brezovsky, Jiri Damborsky. PLoS Comput Biol 2014
308
41

Predicting the functional effect of amino acid substitutions and indels.
Yongwook Choi, Gregory E Sims, Sean Murphy, Jason R Miller, Agnes P Chan. PLoS One 2012
41


UniRef: comprehensive and non-redundant UniProt reference clusters.
Baris E Suzek, Hongzhan Huang, Peter McGarvey, Raja Mazumder, Cathy H Wu. Bioinformatics 2007
628
35

Discriminative modelling of context-specific amino acid substitution probabilities.
Christof Angermüller, Andreas Biegert, Johannes Söding. Bioinformatics 2012
32
35

Computational analysis of functional single nucleotide polymorphisms associated with the CYP11B2 gene.
Minyue Jia, Boyun Yang, Zhongyi Li, Huiling Shen, Xiaoxiao Song, Wei Gu. PLoS One 2014
21
35

Electrostatics of nanosystems: application to microtubules and the ribosome.
N A Baker, D Sept, S Joseph, M J Holst, J A McCammon. Proc Natl Acad Sci U S A 2001
35

SuSPect: enhanced prediction of single amino acid variant (SAV) phenotype using network features.
Christopher M Yates, Ioannis Filippis, Lawrence A Kelley, Michael J E Sternberg. J Mol Biol 2014
109
35

Structural impact analysis of missense SNPs present in the uroguanylin gene by long-term molecular dynamics simulations.
Antonio C S Marcolino, William F Porto, Állan S Pires, Octavio L Franco, Sérgio A Alencar. J Theor Biol 2016
7
85


SNAP predicts effect of mutations on protein function.
Yana Bromberg, Guy Yachdav, Burkhard Rost. Bioinformatics 2008
147
29

The PANTHER database of protein families, subfamilies, functions and pathways.
Huaiyu Mi, Betty Lazareva-Ulitsky, Rozina Loo, Anish Kejariwal, Jody Vandergriff, Steven Rabkin, Nan Guo, Anushya Muruganujan, Olivier Doremieux, Michael J Campbell,[...]. Nucleic Acids Res 2005
552
29


PON-P2: prediction method for fast and reliable identification of harmful variants.
Abhishek Niroula, Siddhaling Urolagin, Mauno Vihinen. PLoS One 2015
108
29


PDB2PQR: an automated pipeline for the setup of Poisson-Boltzmann electrostatics calculations.
Todd J Dolinsky, Jens E Nielsen, J Andrew McCammon, Nathan A Baker. Nucleic Acids Res 2004
23

Molecular dynamic simulation reveals damaging impact of RAC1 F28L mutation in the switch I region.
Ambuj Kumar, Vidya Rajendran, Rao Sethumadhavan, Rituraj Purohit. PLoS One 2013
27
23


SDM--a server for predicting effects of mutations on protein stability and malfunction.
Catherine L Worth, Robert Preissner, Tom L Blundell. Nucleic Acids Res 2011
265
23

dbSNP: the NCBI database of genetic variation.
S T Sherry, M H Ward, M Kholodov, J Baker, L Phan, E M Smigielski, K Sirotkin. Nucleic Acids Res 2001
23


Theoretical structural characterization of lymphoguanylin: A potential candidate for the development of drugs to treat gastrointestinal disorders.
Állan S Pires, William F Porto, Pryscilla O Castro, Octavio L Franco, Sérgio A Alencar. J Theor Biol 2017
6
66

Prediction of the impact of coding missense and nonsense single nucleotide polymorphisms on HD5 and HBD1 antibacterial activity against Escherichia coli.
William F Porto, Diego O Nolasco, Állan S Pires, Rinaldo W Pereira, Octávio L Franco, Sérgio A Alencar. Biopolymers 2016
9
44

In silico analyses of deleterious missense SNPs of human apolipoprotein E3.
Allan S Pires, William F Porto, Octavio L Franco, Sérgio A Alencar. Sci Rep 2017
14
28

The FoldX web server: an online force field.
Joost Schymkowitz, Jesper Borg, Francois Stricher, Robby Nys, Frederic Rousseau, Luis Serrano. Nucleic Acids Res 2005
23

SIFT web server: predicting effects of amino acid substitutions on proteins.
Ngak-Leng Sim, Prateek Kumar, Jing Hu, Steven Henikoff, Georg Schneider, Pauline C Ng. Nucleic Acids Res 2012
942
23


Comparative Protein Structure Modeling Using MODELLER.
Benjamin Webb, Andrej Sali. Curr Protoc Bioinformatics 2014
718
17

HD5 and HBD1 variants' solvation potential energy correlates with their antibacterial activity against Escherichia coli.
William F Porto, Diego O Nolasco, Állan S Pires, Gabriel R Fernandes, Octávio L Franco, Sérgio A Alencar. Biopolymers 2016
6
50

EFIN: predicting the functional impact of nonsynonymous single nucleotide polymorphisms in human genome.
Shuai Zeng, Jing Yang, Brian Hon-Yin Chung, Yu Lung Lau, Wanling Yang. BMC Genomics 2014
14
21

Guanylin: an endogenous activator of intestinal guanylate cyclase.
M G Currie, K F Fok, J Kato, R J Moore, F K Hamra, K L Duffin, C E Smith. Proc Natl Acad Sci U S A 1992
497
17



Performance of In Silico Tools for the Evaluation of UGT1A1 Missense Variants.
Carina Rodrigues, Alice Santos-Silva, Elísio Costa, Elsa Bronze-da-Rocha. Hum Mutat 2015
12
25

ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules.
Haim Ashkenazy, Shiran Abadi, Eric Martz, Ofer Chay, Itay Mayrose, Tal Pupko, Nir Ben-Tal. Nucleic Acids Res 2016
875
17

Predicting the functional, molecular, and phenotypic consequences of amino acid substitutions using hidden Markov models.
Hashem A Shihab, Julian Gough, David N Cooper, Peter D Stenson, Gary L A Barker, Keith J Edwards, Ian N M Day, Tom R Gaunt. Hum Mutat 2013
582
17

Crystal structures of human alpha-defensins HNP4, HD5, and HD6.
Agnieszka Szyk, Zhibin Wu, Kenneth Tucker, De Yang, Wuyuan Lu, Jacek Lubkowski. Protein Sci 2006
146
11

Structural and functional characterization of hBD-1(Ser35), a peptide deduced from a DEFB1 polymorphism.
Raffaella Circo, Barbara Skerlavaj, Renato Gennaro, Antonio Amoroso, Margherita Zanetti. Biochem Biophys Res Commun 2002
28
11

Reduction of disulphide bonds unmasks potent antimicrobial activity of human β-defensin 1.
Bjoern O Schroeder, Zhihong Wu, Sabine Nuding, Sandra Groscurth, Moritz Marcinowski, Julia Beisner, Johannes Buchner, Martin Schaller, Eduard F Stange, Jan Wehkamp. Nature 2011
309
11




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.