Works matching DE "STRUCTURAL bioinformatics"

Results: 456

Genetic and Molecular Characterization of Atopic Eczema: A Comprehensive Bioinformatics Analysis of Gene Interactions and Pathways.

Published in:

Biomedical & Biotechnology Research Journal, 2025, v. 9, n. 2, p. 208, doi. 10.4103/bbrj.bbrj_101_25

By:

Sindhu, Basannagari Sreenivasa;
Adiga, Usha S;
Kumar, Kukkapalli Prathap;
Sindhuja, Nagishetty;
Ravikanth, Eddula Venkata;
Sneha, Karanam Harikumar

Publication type:

Article

Inverse coupling in leak and voltage-activated K+ channel gates underlies distinct roles in electrical signaling.

Published in:

Nature Structural & Molecular Biology, 2009, v. 16, n. 1, p. 71, doi. 10.1038/nsmb.1525

By:

Ben-Abu, Yuval;
Yufeng Zhou;
Zilberberg, Noam;
Yifrach, Ofer

Publication type:

Article

The effect of H3K79 dimethylation and H4K20 trimethylation on nucleosome and chromatin structure.

Published in:

Nature Structural & Molecular Biology, 2008, v. 15, n. 10, p. 1122, doi. 10.1038/nsmb.1489

By:

Xu Lu;
Simon, Matthew D.;
Chodaparambil, Jayanth V.;
Hansen, Jeffrey C.;
Shokat, Kevan M.;
Luger, Karolin

Publication type:

Article

News Blast.

Published in:: Bio-IT World, 2005, v. 4, n. 3, p. 40
Publication type:: Article

A self-adaptive evolutionary algorithm using Monte Carlo Fragment insertion and conformation clustering for the protein structure prediction problem.

Published in:

Natural Computing, 2024, v. 23, n. 4, p. 687, doi. 10.1007/s11047-022-09916-z

By:

Parpinelli, Rafael Stubs;
Will, Nilcimar Neitzel;
da Silva, Renan Samuel

Publication type:

Article

Molecular characterization, expression and in-silico analysis of fibrinogen-related protein 1 (frep1) in malaria vector Anopheles stephensi.

Published in:

Molecular Biology Reports, 2024, v. 51, n. 1, p. 1, doi. 10.1007/s11033-024-09891-x

By:

Yadav, Mahima;
Dahiya, Nisha;
Srivastava, Vartika;
Singh, Hitesh;
Kataria, Divya;
Janjoter, Sangeeta;
Dixit, Ranjnikant;
Sehrawat, Neelam

Publication type:

Article

Structural transformations in amorphous As xSe1− x (0 ≤ x ≤ 0.20) films.

Published in:

Journal of Materials Science: Materials in Electronics, 2009, v. 20, n. 11, p. 1095, doi. 10.1007/s10854-008-9833-8

By:

Mikla, V. I.;
Mikla, V. V.

Publication type:

Article

Structural and physicochemical properties of polar lipids from thermophilic archaea.

Published in:

Applied Microbiology & Biotechnology, 2009, v. 84, n. 2, p. 249, doi. 10.1007/s00253-009-2102-9

By:

Ulrih, Nataša Poklar;
Gmajner, Dejan;
Raspor, Peter

Publication type:

Article

Atomic displacement parameters in structural biology.

Published in:

Amino Acids, 2018, v. 50, n. 7, p. 775, doi. 10.1007/s00726-018-2574-y

By:

Carugo, Oliviero

Publication type:

Article

A proteomic Ramachandran plot (PRplot).

Published in:

Amino Acids, 2013, v. 44, n. 2, p. 781, doi. 10.1007/s00726-012-1402-z

By:

Carugo, Oliviero;
Djinović-Carugo, Kristina

Publication type:

Article

Screening and functional identification of antioxidant microRNA-size sRNAs from Spirulina platensis using high-throughput sequencing.

Published in:

Functional Plant Biology, 2021, v. 48, n. 10, p. 973, doi. 10.1071/FP20405

By:

Chen, Dechao;
Chen, Shuya;
Zhao, Chenxi;
Yan, Jin;
Ma, Zelong;
Zhao, Xiaokai;
Wang, Zhenfeng;
Wang, Xuedong;
Wang, Huili

Publication type:

Article

Mobi 2.0: an improved method to define intrinsic disorder, mobility and linear binding regions in protein structures.

Published in:

Bioinformatics, 2018, v. 34, n. 1, p. 122, doi. 10.1093/bioinformatics/btx592

By:

Piovesan, Damiano;
Tosatto, Silvio C E

Publication type:

Article

NavMol 3.0: enabling the representation of metabolic reactions by blind users.

Published in:

Bioinformatics, 2018, v. 34, n. 1, p. 120, doi. 10.1093/bioinformatics/btx556

By:

Binev, Yuri;
Peixoto, Daniela;
Pereira, Florbela;
Rodrigues, Ian;
Cavaco, Sofia;
Lobo, Ana M;
Aires-de-Sousa, João

Publication type:

Article

LightDock: a new multi-scale approach to protein--protein docking.

Published in:

Bioinformatics, 2018, v. 34, n. 1, p. 49, doi. 10.1093/bioinformatics/btx555

By:

Jiménez-García, Brian;
Roel-Touris, Jorge;
Romero-Durana, Miguel;
Vidal, Miquel;
Jiménez-González, Daniel;
Fernández-Recio, Juan

Publication type:

Article

In silico structural modeling of multiple epigenetic marks on DNA.

Published in:

Bioinformatics, 2018, v. 34, n. 1, p. 41, doi. 10.1093/bioinformatics/btx516

By:

Krawczyk, Konrad;
Demharter, Samuel;
Knapp, Bernhard;
Deane, Charlotte M;
Minary, Peter

Publication type:

Article

Cpipe: a comprehensive computational platform for sequence and structure-based analyses of Cysteine residues.

Published in:

Bioinformatics, 2017, v. 33, n. 15, p. 2395, doi. 10.1093/bioinformatics/btx181

By:

Soylu, Inanc;
Marino, Stefano M.

Publication type:

Article

Correlated mutations select misfolded from properly folded proteins.

Published in:

Bioinformatics, 2017, v. 33, n. 10, p. 1497, doi. 10.1093/bioinformatics/btx013

By:

Wozniak, P. P.;
Vriend, G.;
Kotulska, M.

Publication type:

Article

MobiDB-lite: fast and highly specific consensus prediction of intrinsic disorder in proteins.

Published in:

Bioinformatics, 2017, v. 33, n. 9, p. 1402, doi. 10.1093/bioinformatics/btx015

By:

Necci, Marco;
Piovesan, Damiano;
Dosztányi, Zsuzsanna;
Tosatto, Silvio C. E.

Publication type:

Article

Sphinx: merging knowledge-based and ab initio approaches to improve protein loop prediction.

Published in:

Bioinformatics, 2017, v. 33, n. 9, p. 1346, doi. 10.1093/bioinformatics/btw823

By:

Marks, Claire;
Nowak, Jaroslaw;
Klostermann, Stefan;
Georges, Guy;
Dunbar, James;
Jiye Shi;
Kelm, Sebastian;
Deane, Charlotte M.

Publication type:

Article

Cross-React: a new structural bioinformatics method for predicting allergen cross-reactivity.

Published in:

Bioinformatics, 2017, v. 33, n. 7, p. 1014, doi. 10.1093/bioinformatics/btw767

By:

Negi, Surendra S.;
Braun, Werner

Publication type:

Article

The structural bioinformatics library: modeling in biomolecular science and beyond.

Published in:

Bioinformatics, 2017, v. 33, n. 7, p. 997, doi. 10.1093/bioinformatics/btw752

By:

Cazals, Frédéric;
Dreyfus, Tom

Publication type:

Article

MIToS.jl: mutual information tools for protein sequence analysis in the Julia language.

Published in:

Bioinformatics, 2017, v. 33, n. 4, p. 564, doi. 10.1093/bioinformatics/btw646

By:

Zea, Diego J.;
Anfossi, Diego;
Nielsen, Morten;
Marino-Buslje, Cristina

Publication type:

Article

Accounting for pairwise distance restraints in FFT-based protein--protein docking.

Published in:

Bioinformatics, 2016, v. 32, n. 21, p. 3342, doi. 10.1093/bioinformatics/btw306

By:

Bing Xia;
Vajda, Sandor;
Kozakov, Dima

Publication type:

Article

Performance of protein-structure predictions with the physics-based UNRES force field in CASP11.

Published in:

Bioinformatics, 2016, v. 32, n. 21, p. 3270, doi. 10.1093/bioinformatics/btw404

By:

Krupa, Paweł;
Mozolewska, Magdalena A.;
Wiśniewska, Marta;
Yanping Yin;
Yi He;
Sieradzan, Adam K.;
Ganzynkowicz, Robert;
Lipska, Agnieszka G.;
Karczyńska, Agnieszka;
Ślusarz, Magdalena;
Ślusarz, Rafał;
Giełdoń, Artur;
Czaplewski, Cezary;
Jagieła, Dawid;
Zaborowski, Bartłomiej;
Scheraga, Harold A.;
Liwo, Adam

Publication type:

Article

Shape complementarity and hydrogen bond preferences in protein-protein interfaces: implications for antibody modeling and protein-protein docking.

Published in:

Bioinformatics, 2016, v. 32, n. 16, p. 2451, doi. 10.1093/bioinformatics/btw197

By:

Daisuke Kuroda;
Gray, Jeffrey J.

Publication type:

Article

mDCC_tools: characterizing multi-modal atomic motions in molecular dynamics trajectories.

Published in:

Bioinformatics, 2016, v. 32, n. 16, p. 2531, doi. 10.1093/bioinformatics/btw129

By:

Kota Kasahara;
Neetha Mohan;
Ikuo Fukuda;
Haruki Nakamura

Publication type:

Article

PinaColada: peptide-inhibitor ant colony ad-hoc design algorithm.

Published in:

Bioinformatics, 2016, v. 32, n. 15, p. 2289, doi. 10.1093/bioinformatics/btw133

By:

Zaidman, Daniel;
Wolfson, Haim J.

Publication type:

Article

LIBRA: LIgand Binding site Recognition Application.

Published in:

Bioinformatics, 2015, v. 31, n. 24, p. 4020, doi. 10.1093/bioinformatics/btv489

By:

Hung, Le Viet;
Caprari, Silvia;
Bizai, Massimiliano;
Toti, Daniele;
Polticelli, Fabio

Publication type:

Article

svviz: a read viewer for validating structural variants.

Published in:

Bioinformatics, 2015, v. 31, n. 24, p. 3994, doi. 10.1093/bioinformatics/btv478

By:

Spies, Noah;
Zook, Justin M.;
Salit, Marc;
Sidow, Arend

Publication type:

Article

BiopLib and BiopTools--a C programming library and toolset for manipulating protein structure.

Published in:

Bioinformatics, 2015, v. 31, n. 24, p. 4017, doi. 10.1093/bioinformatics/btv482

By:

Porter, Craig T.;
Martin, Andrew C. R.

Publication type:

Article

InteractiveROSETTA: a graphical user interface for the PyRosetta protein modeling suite.

Published in:

Bioinformatics, 2015, v. 31, n. 24, p. 4023, doi. 10.1093/bioinformatics/btv492

By:

Schenkelberg, Christian D.;
Bystroff, Christopher

Publication type:

Article

An integrated structure- and system-based framework to identify new targets of metabolites and known drugs.

Published in:

Bioinformatics, 2015, v. 31, n. 24, p. 3922, doi. 10.1093/bioinformatics/btv477

By:

Naveed, Hammad;
Hameed, Umar S.;
Harrus, Deborah;
Bourguet, William;
Arold, Stefan T.;
Xin Gao

Publication type:

Article

Integrated structure- and ligand-based in silico approach to predict inhibition of cytochrome P450 2D6.

Published in:

Bioinformatics, 2015, v. 31, n. 24, p. 3930, doi. 10.1093/bioinformatics/btv486

By:

Martiny, Virginie Y.;
Carbonell, Pablo;
Chevillard, Florent;
Moroy, Gautier;
Nicot, Arnaud B.;
Vayer, Philippe;
Villoutreix, Bruno O.;
Miteva, Maria A.

Publication type:

Article

Pairwise RNA secondary structure alignment with conserved stem pattern.

Published in:

Bioinformatics, 2015, v. 31, n. 24, p. 3914, doi. 10.1093/bioinformatics/btv471

By:

Jimmy Ka Ho Chiu;
Yi-Ping Phoebe Chen

Publication type:

Article

HHalign-Kbest: exploring sub-optimal alignments for remote homology comparative modeling.

Published in:

Bioinformatics, 2015, v. 31, n. 23, p. 3850, doi. 10.1093/bioinformatics/btv441

By:

Jinchao Yu;
Picord, Geraldine;
Tuffery, Pierre;
Guerois, Raphael

Publication type:

Article

Solubis: optimize your protein.

Published in:

2015

By:

De Baets, Greet;
Van Durme, Joost;
van der Kant, Rob;
Schymkowitz, Joost;
Rousseau, Frederic

Publication type:

Product Review

Extending P450 site-of-metabolism models with region-resolution data.

Published in:

Bioinformatics, 2015, v. 31, n. 12, p. 1966, doi. 10.1093/bioinformatics/btv100

By:

Zaretzki, Jed M.;
Browning, Michael R.;
Hughes, Tyler B.;
Swamidass, S. Joshua

Publication type:

Article

PEASE: predicting B-cell epitopes utilizing antibody sequence.

Published in:

2015

By:

Sela-Culang, Inbal;
Ashkenazi, Shaul;
Peters, Bjoern;
Ofran, Yanay

Publication type:

Product Review

HYCUD: a computational tool for prediction of effective rotational correlation time in flexible proteins.

Published in:

2015

By:

Rezaei-Ghaleh, Nasrollah;
Klama, Frederik;
Munari, Francesca;
Zweckstetter, Markus

Publication type:

Product Review

Rclick: a web server for comparison of RNA 3D structures.

Published in:

Bioinformatics, 2015, v. 31, n. 6, p. 966, doi. 10.1093/bioinformatics/btu752

By:

Nguyen, Minh N.;
Verma, Chandra

Publication type:

Article

What handedness and angles between helices has the studied three-helical protein domain?

Published in:

Bioinformatics, 2015, v. 31, n. 6, p. 963, doi. 10.1093/bioinformatics/btu737

By:

Pereyaslavets, Leonid B.;
Glyakina, Anna V.;
Dovidchenko, Nikita V.;
Sokolovskiy, Igor V.;
Galzitskaya, Oxana V.

Publication type:

Article

Ulysses: accurate detection of low-frequency structural variations in large insert-size sequencing libraries.

Published in:

Bioinformatics, 2015, v. 31, n. 6, p. 801, doi. 10.1093/bioinformatics/btu730

By:

Gillet-Markowska, Alexandre;
Richard, Hugues;
Fischer, Gilles;
Lafontaine, Ingrid

Publication type:

Article

ballaxy: web services for structural bioinformatics.

Published in:

Bioinformatics, 2015, v. 31, n. 1, p. 121, doi. 10.1093/bioinformatics/btu574

By:

Hildebrandt, Anna Katharina;
Stöckel, Daniel;
Fischer, Nina M.;
de la Garza, Luis;
Krüger, Jens;
Nickels, Stefan;
Röttig, Marc;
Schärfe, Charlotta;
Schumann, Marcel;
Thiel, Philipp;
Lenhof, Hans-Peter;
Kohlbacher, Oliver;
Hildebrandt, Andreas

Publication type:

Article

GlycoDigest: a tool for the targeted use of exoglycosidase digestions in glycan structure determination.

Published in:

Bioinformatics, 2014, v. 30, n. 21, p. 3131, doi. 10.1093/bioinformatics/btu425

By:

Gotz, Lou;
Abrahams, Jodie L.;
Mariethoz, Julien;
Rudd, Pauline M.;
Karlsson, Niclas G.;
Packer, Nicolle H.;
Campbell, Matthew P.;
Lisacek, Frederique

Publication type:

Article

Network-guided regression for detecting associations between DNA methylation and gene expression.

Published in:

Bioinformatics, 2014, v. 30, n. 19, p. 2693, doi. 10.1093/bioinformatics/btu361

By:

Wang, Zi;
Curry, Edward;
Montana, Giovanni

Publication type:

Article

Cloud4Psi: cloud computing for 3D protein structure similarity searching.

Published in:

Bioinformatics, 2014, v. 30, n. 19, p. 2822, doi. 10.1093/bioinformatics/btu389

By:

Mrozek, Dariusz;
Małysiak-Mrozek, Bożena;
Kłapciński, Artur

Publication type:

Article

ECCB 2014: The 13th European Conference on Computational Biology.

Published in:

2014

By:

Devignes, Marie-Dominique;
Moreau, Yves

Publication type:

Proceeding

SKINK: a web server for string kernel based kink prediction in α-helices.

Published in:

2014

By:

Seifert, Tim;
Lund, Andreas;
Kneissl, Benny;
Mueller, Sabine C.;
Tautermann, Christofer S.;
Hildebrandt, Andreas

Publication type:

Product Review

Towards the development of standardized methods for comparison, ranking and evaluation of structure alignments.

Published in:

Bioinformatics, 2013, v. 29, n. 1, p. 47, doi. 10.1093/bioinformatics/bts600

By:

Slater, Alex W.;
Castellanos, Javier I.;
Sippl, Manfred J.;
Melo, Francisco

Publication type:

Article

ETAscape: analyzing protein networks to predict enzymatic function and substrates in Cytoscape.

Published in:

Bioinformatics, 2012, v. 28, n. 16, p. 2186, doi. 10.1093/bioinformatics/bts331

By:

Bachman, Benjamin J.;
Venner, Eric;
Lua, Rhonald C.;
Erdin, Serkan;
Lichtarge, Olivier

Publication type:

Article