Michael L. Tress - researchr alias

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Viewing Publication 1 - 19 from 19

2023

GENCODE: reference annotation for the human and mouse genomes in 2023Adam Frankish, Silvia Carbonell Sala, Mark Diekhans, Irwin Jungreis, Jane E. Loveland, Jonathan M. Mudge, Cristina Sisu, James C. Wright, Carme Arnan, If Barnes, Abhimanyu Banerjee, Ruth Bennett, Andrew E. Berry, Alexandra Bignell, Carles Boix, Ferriol Calvet Riera, Daniel Cerdán-Vélez, Fiona Cunningham, Claire Davidson, Sarah M. Donaldson, Cagatay Dursun, Reham Fatima, Stefano Giorgetti, Carlos García-Girón, Jose M. Gonzalez, Matthew Hardy, Peter W. Harrison, Thibaut Hourlier, Zoe Hollis, Toby Hunt, Benjamin James, Yunzhe Jiang, Rory Johnson, Mike P. Kay, Julien Lagarde, Fergal J. Martin, Laura Martínez Gómez, Surag Nair, Pengyu Ni, Fernando Pozo, Vivek Ramalingam, Magali Ruffier, Bianca M. Schmitt, Jacob M. Schreiber, Emily Steed, Marie-Marthe Suner, Dulika Sumathipala, Irina Sycheva, Barbara Uszczynska-Ratajczak, Elizabeth Wass, Yucheng T. Yang, Andrew D. Yates, Zahoor Zafrulla, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Anshul Kundaje, Benedict Paten, Michael L. Tress, Paul Flicek. nar, 51(D1):942-949, January 2023. [doi]

2022

APPRIS: selecting functionally important isoformsJose Manuel Rodriguez, Fernando Pozo, Daniel Cerdán-Vélez, Tomás Di Domenico, Jesús Vázquez, Michael L. Tress. nar, 50(D1):54-59, 2022. [doi]

2021

GENCODE 2021Adam Frankish, Mark Diekhans, Irwin Jungreis, Julien Lagarde, Jane E. Loveland, Jonathan M. Mudge, Cristina Sisu, James C. Wright, Joel Armstrong, If Barnes, Andrew E. Berry, Alexandra Bignell, Carles Boix, Silvia Carbonell Sala, Fiona Cunningham, Tomás Di Domenico, Sarah M. Donaldson, Ian T. Fiddes, Carlos García-Girón, Jose M. Gonzalez, Tiago Grego, Matthew Hardy, Thibaut Hourlier, Kevin L. Howe, Toby Hunt, Osagie G. Izuogu, Rory Johnson, Fergal J. Martin, Laura Martínez, Shamika Mohanan, Paul Muir, Fabio C. P. Navarro, Anne Parker, Baikang Pei, Fernando Pozo, Ferriol Calvet Riera, Magali Ruffier, Bianca M. Schmitt, Eloise Stapleton, Marie-Marthe Suner, Irina Sycheva, Barbara Uszczynska-Ratajczak, Maxim Y. Wolf, Jinuri Xu, Yucheng T. Yang, Andrew D. Yates, Daniel R. Zerbino, Yan Zhang 0032, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Benedict Paten, Michael L. Tress, Paul Flicek. nar, 49(Database-Issue), 2021. [doi]

2020

An analysis of tissue-specific alternative splicing at the protein levelJose Manuel Rodriguez, Fernando Pozo, Tomás Di Domenico, Jesús Vázquez, Michael L. Tress. ploscb, 16(10), 2020. [doi]

2019

GENCODE reference annotation for the human and mouse genomesAdam Frankish, Mark Diekhans, Anne-Maud Ferreira, Rory Johnson, Irwin Jungreis, Jane Loveland, Jonathan M. Mudge, Cristina Sisu, James Wright, Joel Armstrong, If Barnes, Andrew E. Berry, Alexandra Bignell, Silvia Carbonell Sala, Jacqueline Chrast, Fiona Cunningham, Tomás Di Domenico, Sarah M. Donaldson, Ian T. Fiddes, Carlos García-Girón, Jose M. Gonzalez, Tiago Grego, Matthew Hardy, Thibaut Hourlier, Toby Hunt, Osagie G. Izuogu, Julien Lagarde, Fergal J. Martin, Laura Martínez, Shamika Mohanan, Paul Muir, Fabio C. P. Navarro, Anne Parker, Baikang Pei, Fernando Pozo, Magali Ruffier, Bianca M. Schmitt, Eloise Stapleton, Marie-Marthe Suner, Irina Sycheva, Barbara Uszczynska-Ratajczak, Jinuri Xu, Andrew Yates, Daniel R. Zerbino, Yan Zhang 0032, Bronwen L. Aken, Jyoti Choudhary, Mark Gerstein, Roderic Guigó, Tim J. P. Hubbard, Manolis Kellis, Benedict Paten, Alexandre Reymond, Michael L. Tress, Paul Flicek. nar, 47(Database-Issue), 2019. [doi]

2018

APPRIS 2017: principal isoforms for multiple gene setsJose Manuel Rodriguez, Juan Rodriguez-Rivas, Tomás Di Domenico, Jesús Vázquez, Alfonso Valencia, Michael L. Tress. nar, 46(Database-Issue), 2018. [doi]

2015

2014

FireDB: a compendium of biological and pharmacologically relevant ligandsPaolo Maietta, Gonzalo López, Angel Carro, Benjamin J. Pingilley, Leticia G. Leon, Alfonso Valencia, Michael L. Tress. nar, 42(Database-Issue):267-272, 2014. [doi]

2013

APPRIS: annotation of principal and alternative splice isoformsJose Manuel Rodriguez, Paolo Maietta, Iakes Ezkurdia, Alessandro Pietrelli, Jan-Jaap Wesselink, Gonzalo López, Alfonso Valencia, Michael L. Tress. nar, 41(Database-Issue):110-117, 2013. [doi]

2011

firestar - advances in the prediction of functionally important residuesGonzalo López, Paolo Maietta, Jose Manuel Rodriguez, Alfonso Valencia, Michael L. Tress. nar, 39(Web-Server-Issue):235-241, 2011. [doi]

2009

Progress and challenges in predicting protein-protein interaction sitesIakes Ezkurdia, Lisa Bartoli, Piero Fariselli, Rita Casadio, Alfonso Valencia, Michael L. Tress. bib, 10(3):233-246, 2009. [doi]

2008

Determination and validation of principal gene productsMichael L. Tress, Jan-Jaap Wesselink, Adam Frankish, Gonzalo López, Nick Goldman, Ari Löytynoja, Tim Massingham, Fabio Pardi, Simon Whelan, Jennifer Harrow, Alfonso Valencia. bioinformatics, 24(1):11-17, 2008. [doi]

2007

::::firestar:::: - prediction of functionally important residues using structural templates and alignment reliabilityGonzalo López, Alfonso Valencia, Michael L. Tress. nar, 35(Web-Server-Issue):573-577, 2007. [doi]

FireDB - a database of functionally important residues from proteins of known structureGonzalo López, Alfonso Valencia, Michael L. Tress. nar, 35(Database-Issue):219-223, 2007. [doi]

2006

TreeDet: a web server to explore sequence spaceAngel Carro, Michael L. Tress, David de Juan, Florencio Pazos, Pedro Lopez-Romero, Antonio del Sol, Alfonso Valencia, Ana María Rojas. nar, 34(Web-Server-Issue):110-115, 2006. [doi]

An analysis of the Sargasso Sea resource and the consequences for database compositionMichael L. Tress, Domenico Cozzetto, Anna Tramontano, Alfonso Valencia. bmcbi, 7:213, 2006. [doi]

2004

SQUARE-determining reliable regions in sequence alignmentsMichael L. Tress, Osvaldo Graña, Alfonso Valencia. bioinformatics, 20(6):974-975, 2004. [doi]

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