Biblio

Found 305 results
[ Author(Desc)] Title Year
A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 
F
Characterization of compensated mutations in terms of structural and physico-chemical properties., Ferrer-Costa, Carles, Orozco Modesto, and de la Cruz Xavier , J Mol Biol, 2007 Jan 5, Volume 365, p.249-56, (2007)
nucleR: a package for non-parametric nucleosome positioning., Flores, Oscar, and Orozco Modesto , Bioinformatics, 2011 Aug 1, Volume 27, p.2149-50, (2011)
Fuzziness and noise in nucleosomal architecture., Flores, Oscar, Deniz Ozgen, Soler-López Montserrat, and Orozco Modesto , Nucleic Acids Res, 2014 Apr, Volume 42, p.4934-46, (2014)
DASiR: Distributed Annotation System in R, Flores, Oscar, and Mantsoki Anna , (2013)
The structure of human 4F2hc ectodomain provides a model for homodimerization and electrostatic interaction with plasma membrane., Fort, Joana, de la Ballina Laura R., Burghardt Hans E., Ferrer-Costa Carles, Turnay Javier, Ferrer-Orta Cristina, Usón Isabel, Zorzano Antonio, Fernandez-Recio Juan, Orozco Modesto, et al. , J Biol Chem, 2007 Oct 26, Volume 282, p.31444-52, (2007)
Extension of the MST continuum solvation model to the RM1 semiempirical Hamiltonian., Forti, Flavio, Barril Xavier, F Luque Javier, and Orozco Modesto , J Comput Chem, 2008 Mar, Volume 29, p.578-87, (2008)
Ligand-induced changes in the binding sites of proteins., Fradera, Xavier, de la Cruz Xavier, Silva Carlos H. T. P., Gelpí Josep-Lluis, Luque F J., and Orozco Modesto , Bioinformatics, 2002 Jul, Volume 18, p.939-48, (2002)
Molecular dynamics study of 2rotaxanes: influence of solvation and cation on co-conformation., Fradera, Xavier, Márquez Manuel, Smith Bradley D., Orozco Modesto, and F Luque Javier , J Org Chem, 2003 Jun 13, Volume 68, p.4663-73, (2003)
G
VeriNA3d: an R package for nucleic acids data mining, Gallego, Diego, Darré Leonardo, Dans Pablo D., and Orozco Modesto , Bioinformatics, 07/2019, (2019)
Efficient siRNA-peptide conjugation for specific targeted delivery into tumor cells, Gandioso, Albert, Massaguer Anna, Villegas Núria, Salvans Cándida, Sanchez Dani, Brun-Heath Isabelle, Marchan Vicente, Orozco Modesto, and Terrazas Montserrat , Chemical Communications, 03/2017, Volume 53, Issue 19, p.2870 - 2873, (2017)
Defining the nature of thermal intermediate in 3 state folding proteins: apoflavodoxin, a study case., García-Fandiño, Rebeca, Bernadó Pau, Ayuso-Tejedor Sara, Sancho Javier, and Orozco Modesto , PLoS Comput Biol, 2012, Volume 8, p.e1002647, (2012)
Theoretical characterization of the dynamical behavior and transport properties of alpha,gamma-peptide nanotubes in solution., García-Fandiño, Rebeca, Granja Juan R., D’Abramo Marco, and Orozco Modesto , J Am Chem Soc, 2009 Nov 4, Volume 131, p.15678-86, (2009)
Targeting RNA structure in SMN2 reverses spinal muscular atrophy molecular phenotypes, Garcia-Lopez, Amparo, Tessaro Francesca, Jonker Hendrik R. A., Wacker Anna, Richter Christian, Comte Arnaud, Berntenis Nikolaos, Schmucki Roland, Hatje Klas, Petermann Olivier, et al. , Nature Communication, 2018/05/23, Volume 9, Issue 1, p.2032, (2018)
Classical molecular interaction potentials: improved setup procedure in molecular dynamics simulations of proteins., Gelpí, Josep-Lluis, Kalko S G., Barril X, Cirera J, de La Cruz X, Luque F J., and Orozco Modesto , Proteins, 2001 Dec 1, Volume 45, p.428-37, (2001)
Inntags: small self-structured epitopes for innocuous protein tagging., Georgieva, Maya V., Yahya Galal, Codó Laia, Ortiz Raúl, Teixidó Laura, Claros José, Jara Ricardo, Jara Mònica, Iborra Antoni, Gelpí Josep-Lluis, et al. , Nat Methods, 2015 Oct, Volume 12, p.955-8, (2015)
Substrate-assisted and nucleophilically assisted catalysis in bovine α1,3-galactosyltransferase. Mechanistic implications for retaining glycosyltransferases., Gómez, Hansel, Lluch José M., and Masgrau Laura , J Am Chem Soc, 2013 May 8, Volume 135, p.7053-63, (2013)
Effect of zinc and calcium ions on the rat kidney membrane-bound form of dipeptidyl peptidase IV., Gómez, Hansel, Chappé Mae, Valiente Pedro A., Pons Tirso, Chávez María de Los Ang, Charli Jean-Louis, and Pascual Isel , J Biosci, 2013 Sep, Volume 38, p.461-9, (2013)
Retaining glycosyltransferase mechanism studied by QM/MM methods: lipopolysaccharyl-α-1,4-galactosyltransferase C transfers α-galactose via an oxocarbenium ion-like transition state., Gómez, Hansel, Polyak Iakov, Thiel Walter, Lluch José M., and Masgrau Laura , J Am Chem Soc, 2012 Mar 14, Volume 134, p.4743-52, (2012)
Chapter 7 Molecular Modelling of Nucleic Acids, Gómez, Hansel, Walther Jurgen, Darré Leonardo, Ivani Ivan, Dans Pablo D., and Orozco Modesto , Computational Tools for Chemical Biology, p.165 - 197, (2017)
Essential role of glutamate 317 in galactosyl transfer by α3GalT: a computational study., Gómez, Hansel, Lluch José M., and Masgrau Laura , Carbohydr Res, 2012 Jul 15, Volume 356, p.204-8, (2012)
QM/MM Studies Reveal How Substrate–Substrate and Enzyme–Substrate Interactions Modulate Retaining Glycosyltransferases Catalysis and Mechanism, Gómez, Hansel, Mendoza Fernanda, Lluch José M., and Masgrau Laura , Advances in Protein Chemistry and Structural Biology, Volume 100, p.-, (2015)
A computational and experimental study of O-glycosylation. Catalysis by human UDP-GalNAc polypeptide:GalNAc transferase-T2., Gómez, Hansel, Rojas Raúl, Patel Divya, Tabak Lawrence A., Lluch José M., and Masgrau Laura , Org Biomol Chem, 2014 May 7, Volume 12, p.2645-55, (2014)
QM/MM Studies Reveal How Substrate–Substrate and Enzyme–Substrate Interactions Modulate Retaining Glycosyltransferases Catalysis and Mechanism, Gómez, Hansel, Mendoza Fernanda, Lluch José M., and Masgrau Laura , Advances in Protein Chemistry and Structural Biology, p.-, (2015)
Effect of bulky lesions on DNA: solution structure of a DNA duplex containing a cholesterol adduct., Gómez-Pinto, Irene, Cubero Elena, Kalko Susana G., Monaco Vania, van der Marel Gijs, van Boom Jacques H., Orozco Modesto, and González Carlos , J Biol Chem, 2004 Jun 4, Volume 279, p.24552-60, (2004)
Exploring the reasons for the large density of triplex-forming oligonucleotide target sequences in the human regulatory regions., J Goñi, Ramon, Vaquerizas Juan Manuel, Dopazo Joaquin, and Orozco Modesto , BMC Genomics, 2006, Volume 7, p.63, (2006)
Determining promoter location based on DNA structure first-principles calculations., J Goñi, Ramon, Pérez Alberto, Torrents David, and Orozco Modesto , Genome Biol, 2007, Volume 8, p.R263, (2007)
The Yottaflop Frontier of Atomistic Molecular Dynamics Simulations, J Goñi, Ramon, and Orozco Modesto , Theoretical and Quantum Chemistry at the Dawn of the 21st Century, p.597-616, (2018)
Triplex-forming oligonucleotide target sequences in the human genome., J Goñi, Ramon, de la Cruz Xavier, and Orozco Modesto , Nucleic Acids Res, 2004, Volume 32, p.354-60, (2004)
DNAlive: a tool for the physical analysis of DNA at the genomic scale., J Goñi, Ramon, Fenollosa Carlos, Pérez Alberto, Torrents David, and Orozco Modesto , Bioinformatics, 2008 Aug 1, Volume 24, p.1731-2, (2008)
The catalytic site structural gate of adenosine deaminase allosterically modulates ligand binding to adenosine receptors., Gracia, Eduard, Farré Daniel, Cortés Antoni, Ferrer-Costa Carles, Orozco Modesto, Mallol Josefa, Lluís Carme, Canela Enric I., McCormick Peter J., Franco Rafael, et al. , FASEB J, 2013 Mar, Volume 27, p.1048-61, (2013)
8-Amino guanine accelerates tetramolecular G-quadruplex formation., Gros, Julien, Aviñó Anna, de la Osa Jaime Lopez, González Carlos, Lacroix Laurent, Pérez Alberto, Orozco Modesto, Eritja Ramon, and Mergny Jean-Louis , Chem Commun (Camb), 2008 Jul 7, p.2926-8, (2008)
H
Seven-Membered Ring Nucleoside Analogues: Stereoselective Synthesis and Studies on Their Conformational Properties, Habibian, Maryam, Martínez-Montero Saúl, Portella Guillem, Chua Zhijie, D. Bohle Scott, Orozco Modesto, and Damha Masad J. , Organic Letters, 11/2015, Volume 17, Issue 21, p.5416 - 5419, (2015)
Cooperativity in Drug-DNA Recognition: A Molecular Dynamics Study, Harris, Sarah A., Gavathiotis Evripidis, Searle Mark S., Orozco Modesto, and Laughton Charles A. , Journal of the American Chemical Society, 2001/12/01, Volume 123, Issue 50, p.12658 - 12663, (2001)
Misincorporation of 2'-deoxyoxanosine into DNA: a molecular basis for NO-induced mutagenesis derived from theoretical calculations, Hernández, Begoña, Soliva Robert, F. Luque Javier, and Orozco Modesto , Nucleic Acids Research, Volume 28, p.4873-4883, (2000)
Deficient Endoplasmic Reticulum-Mitochondrial Phosphatidylserine Transfer Causes Liver Disease, Hernández-Alvarez, María Isabel, Sebastián David, Vives Sara, Ivanova Saška, Bartoccioni Paola, Kakimoto Pamela, Plana Natalia, Veiga Sónia R., Hernández Vanessa, Vasconcelos Nuno, et al. , Cell, 05/2019, Volume 177, Issue 4, p.881 - 895.e17, (2019)
Epigenomic analysis detects aberrant super-enhancer DNA methylation in human cancer, Heyn, Holger, Vidal Enrique, Ferreira Humberto J., Vizoso Miguel, Sayols Sergi, Gomez Antonio, Moran Sebastian, Boque-Sastre Raquel, Guil Sonia, Martinez-Cardus Anna, et al. , Genome Biology, 01/2016, Volume 17, p.11, (2016)
NAFlex: a web server for the study of nucleic acid flexibility., Hospital, Adam, Faustino Ignacio, Collepardo-Guevara Rosana, González Carlos, Gelpí Josep-Lluis, and Orozco Modesto , Nucleic Acids Res, 2013 Jul, Volume 41, p.W47-55, (2013)
BIGNASim: a NoSQL database structure and analysis portal for nucleic acids simulation data., Hospital, Adam, Andrio Pau, Cugnasco Cesare, Codó Laia, Becerra Yolanda, Dans Pablo D., Battistini Federica, Torres Jordi, Goni Ramon, Orozco Modesto, et al. , Nucleic Acids Res, 2016 Jan 4, Volume 44, Issue D1, p.D272-8, (2016)
Molecular dynamics simulations: advances and applications., Hospital, Adam, J Goñi Ramon, Orozco Modesto, and Gelpí Josep-Lluis , Adv Appl Bioinform Chem, 2015, Volume 8, p.37-47, (2015)
MDWeb and MDMoby: an integrated web-based platform for molecular dynamics simulations., Hospital, Adam, Andrio Pau, Fenollosa Carles, Cicin-Sain Damjan, Orozco Modesto, and Gelpí Josep-Lluis , Bioinformatics, 2012 May 1, Volume 28, p.1278-9, (2012)
High-throughput molecular dynamics simulations: toward a dynamic view of macromolecular structure, Hospital, Adam, and Gelpí Josep-Lluis , Wiley Interdisciplinary Reviews: Computational Molecular Science, Volume 3, p.364–377, (2013)
The Multiple Roles of Waters in Protein Solvation, Hospital, Adam, Candotti Michela, Gelpí Josep-Lluis, and Orozco Modesto , The Journal of Physical Chemistry B, 01/2017, Issue Klaus Schulten Memorial Issue, (2017)
Benzoderivatives of nucleic acid bases as modified DNA building blocks., Huertas, Oscar, Blas José Ramón, Soteras Ignacio, Orozco Modesto, and F Luque Javier , J Phys Chem A, 2006 Jan 19, Volume 110, p.510-8, (2006)
Local aromaticity in natural nucleobases and their size-expanded benzo-fused derivatives., Huertas, Oscar, Poater Jordi, Fuentes-Cabrera Miguel, Orozco Modesto, Solà Miquel, and F Luque Javier , J Phys Chem A, 2006 Nov 9, Volume 110, p.12249-58, (2006)

Pages