Search Results - "Martin, Alberto J M"

ESpritz: accurate and fast prediction of protein disorder by Walsh, Ian, Martin, Alberto J. M., Di Domenico, Tomàs, Tosatto, Silvio C. E.

“…Motivation: Intrinsically disordered regions are key for the function of numerous proteins, and the scant available experimental annotations suggest the…”
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MobiDB: a comprehensive database of intrinsic protein disorder annotations by DI DOMENICO, Tomás, WALSH, Ian, MARTIN, Alberto J. M, TOSATTO, Silvio C. E

“…Disordered protein regions are key to the function of numerous processes within an organism and to the determination of a protein's biological role. The most…”
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Transcriptional Signatures and Network-Based Approaches Identified Master Regulators Transcription Factors Involved in Experimental Periodontitis Pathogenesis by Vicencio, Emiliano, Nuñez-Belmar, Josefa, Cardenas, Juan P, Cortés, Bastian I, Martin, Alberto J M, Maracaja-Coutinho, Vinicius, Rojas, Adolfo, Cafferata, Emilio A, González-Osuna, Luis, Vernal, Rolando, Cortez, Cristian

“…is a chronic inflammatory disease characterized by the progressive and irreversible destruction of the periodontium. Its aetiopathogenesis lies in the constant…”
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Graphlet Based Metrics for the Comparison of Gene Regulatory Networks by Martin, Alberto J M, Dominguez, Calixto, Contreras-Riquelme, Sebastián, Holmes, David S, Perez-Acle, Tomas

“…Understanding the control of gene expression remains one of the main challenges in the post-genomic era. Accordingly, a plethora of methods exists to identify…”
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First metagenomic analysis of the Andean condor ( Vultur gryphus ) gut microbiome reveals microbial diversity and wide resistome by Martinez-Hernandez, J Eduardo, Berrios, Pablo, Santibáñez, Rodrigo, Cuesta Astroz, Yesid, Sanchez, Carolina, Martin, Alberto J M, Trombert, Annette N

“…The Andean condor ( ) is the largest scavenger in South America. This predatory bird plays a crucial role in their ecological niche by removing carcasses. We…”
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Fly cryptochrome and the visual system by Mazzotta, Gabriella, Rossi, Alessandro, Leonardi, Emanuela, Mason, Moyra, Bertolucci, Cristiano, Caccin, Laura, Spolaore, Barbara, Martin, Alberto J. M., Schlichting, Matthias, Grebler, Rudi, Helfrich-Förster, Charlotte, Mammi, Stefano, Costa, Rodolfo, Tosatto, Silvio C. E.

“…Cryptochromes are flavoproteins, structurally and evolutionarily related to photolyases, that are involved in the development, magnetoreception, and temporal…”
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Transcriptional profiling of embryos lacking the lipoprotein receptor SR-B1 reveals a regulatory circuit governing a neurodevelopmental or metabolic decision during neural tube closure by Santander, Nicolás, Lizama, Carlos, Murgas, Leandro, Contreras, Sebastián, Martin, Alberto J M, Molina, Paz, Quiroz, Alonso, Rivera, Katherine, Salas-Pérez, Francisca, Godoy, Alejandro, Rigotti, Attilio, Busso, Dolores

“…The high-density lipoprotein receptor SR-B1 mediates cellular uptake of several lipid species, including cholesterol and vitamin E. During early mouse…”
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NeEMO: a method using residue interaction networks to improve prediction of protein stability upon mutation by Giollo, Manuel, Martin, Alberto J M, Walsh, Ian, Ferrari, Carlo, Tosatto, Silvio C E

“…The rapid growth of un-annotated missense variants poses challenges requiring novel strategies for their interpretation. From the thermodynamic point of view,…”
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Editorial: Systems modeling: Approaches and applications–Volume II by Garrido, Daniel, Martín, Alberto J. M., Pérez-Rueda, Ernesto

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Network-Based Approaches Reveal Potential Therapeutic Targets for Host-Directed Antileishmanial Therapy Driving Drug Repurposing by Martinez-Hernandez, J Eduardo, Hammoud, Zaynab, de Sousa, Alessandra Mara, Kramer, Frank, Monte-Neto, Rubens L do, Maracaja-Coutinho, Vinicius, Martin, Alberto J M

“…parasites are the causal agent of leishmaniasis, an endemic disease in more than 90 countries worldwide. Over the years, traditional approaches focused on the…”
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An integrated molecular dynamics, principal component analysis and residue interaction network approach reveals the impact of M184V mutation on HIV reverse transcriptase resistance to lamivudine by Bhakat, Soumendranath, Martin, Alberto J M, Soliman, Mahmoud E S

“…The emergence of different drug resistant strains of HIV-1 reverse transcriptase (HIV RT) remains of prime interest in relation to viral pathogenesis as well…”
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Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information by Pollastri, Gianluca, Martin, Alberto J M, Mooney, Catherine, Vullo, Alessandro

“…Structural properties of proteins such as secondary structure and solvent accessibility contribute to three-dimensional structure prediction, not only in the…”
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PANADA: protein association network annotation, determination and analysis by Martin, Alberto J M, Walsh, Ian, Domenico, Tomás Di, Mičetić, Ivan, Tosatto, Silvio C E

“…Increasingly large numbers of proteins require methods for functional annotation. This is typically based on pairwise inference from the homology of either…”
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MOBI: a web server to define and visualize structural mobility in NMR protein ensembles by Martin, Alberto J. M., Walsh, Ian, Tosatto, Silvio C. E.

“…Motivation: MOBI is a web server for the identification of structurally mobile regions in NMR protein ensembles. It provides a binary mobility definition that…”
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GPR43 stimulation on TCRαβ + intraepithelial colonic lymphocytes inhibits the recruitment of encephalitogenic T-cells into the central nervous system and attenuates the development of autoimmunity by Prado, Carolina, Espinoza, Alexandra, Martínez-Hernández, J Eduardo, Petrosino, Joseph, Riquelme, Erick, Martin, Alberto J M, Pacheco, Rodrigo

“…Gut microbiota plays a critical role in the regulation of immune homeostasis. Accordingly, several autoimmune disorders have been associated with dysbiosis in…”
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Correction for Silva-Andrade et al., "Using metabolic networks to predict cross-feeding and competition interactions between microorganisms" by Silva-Andrade, Claudia, Rodriguez-Fernández, María, Garrido, Daniel, Martin, Alberto J M

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RING: networking interacting residues, evolutionary information and energetics in protein structures by Martin, Alberto J. M., Vidotto, Michele, Boscariol, Filippo, Di Domenico, Tomàs, Walsh, Ian, Tosatto, Silvio C. E.

“…Motivation: Residue interaction networks (RINs) have been used in the literature to describe the protein 3D structure as a graph where nodes represent residues…”
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Homology-based reconstruction of regulatory networks for bacterial and archaeal genomes by Romero, Luis, Contreras-Riquelme, Sebastian, Lira, Manuel, Martin, Alberto J. M., Perez-Rueda, Ernesto

“…Gene regulation is a key process for all microorganisms, as it allows them to adapt to different environmental stimuli. However, despite the relevance of gene…”
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Unraveling patient heterogeneity in complex diseases through individualized co-expression networks: a perspective by Latapiat, Verónica, Saez, Mauricio, Pedroso, Inti, Martin, Alberto J. M.

“…This perspective highlights the potential of individualized networks as a novel strategy for studying complex diseases through patient stratification, enabling…”
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Distill: a suite of web servers for the prediction of one-, two- and three-dimensional structural features of proteins by Baú, Davide, Martin, Alberto J M, Mooney, Catherine, Vullo, Alessandro, Walsh, Ian, Pollastri, Gianluca

“…We describe Distill, a suite of servers for the prediction of protein structural features: secondary structure; relative solvent accessibility; contact…”
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