Search Results - "Prieto, Gorka"

Protein Probability Model for High-Throughput Protein Identification by Mass Spectrometry-Based Proteomics by Prieto, Gorka, Vázquez, Jesús

“…Shotgun proteomics is the method of choice for high-throughput protein identification; however, robust statistical methods are essential to automatize this…”
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Enhancing prediction of short linear protein motifs with Wregex 3.0 by Prieto, Gorka, Rodríguez, Jose A., Fullaondo, Asier

“…Short linear motifs (SLiMs) play an important role in protein-protein interactions. However, SLiM patterns are intrinsically permissive and result into many…”
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Prediction of nuclear export signals using weighted regular expressions (Wregex) by Prieto, Gorka, Fullaondo, Asier, Rodriguez, Jose A.

“…Motivation: Leucine-rich nuclear export signals (NESs) are short amino acid motifs that mediate binding of cargo proteins to the nuclear export receptor CRM1,…”
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Using a Simple Cellular Assay to Map NES Motifs in Cancer-Related Proteins, Gain Insight into CRM1-Mediated NES Export, and Search for NES-Harboring Micropeptides by Sendino, Maria, Omaetxebarria, Miren Josu, Prieto, Gorka, Rodriguez, Jose Antonio

“…The nuclear export receptor CRM1 (XPO1) recognizes and binds specific sequence motifs termed nuclear export signals (NESs) in cargo proteins. About 200 NES…”
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A Proteomic Approach for Systematic Mapping of Substrates of Human Deubiquitinating Enzymes by Ramirez, Juanma, Prieto, Gorka, Olazabal-Herrero, Anne, Borràs, Eva, Fernandez-Vigo, Elvira, Alduntzin, Unai, Osinalde, Nerea, Beaskoetxea, Javier, Lectez, Benoit, Aloria, Kerman, Rodriguez, Jose Antonio, Paradela, Alberto, Sabidó, Eduard, Muñoz, Javier, Corrales, Fernando, Arizmendi, Jesus M., Mayor, Ugo

“…The human genome contains nearly 100 deubiquitinating enzymes (DUBs) responsible for removing ubiquitin moieties from a large variety of substrates. Which DUBs…”
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PAnalyzer: a software tool for protein inference in shotgun proteomics by Prieto, Gorka, Aloria, Kerman, Osinalde, Nerea, Fullaondo, Asier, Arizmendi, Jesus M, Matthiesen, Rune

“…Protein inference from peptide identifications in shotgun proteomics must deal with ambiguities that arise due to the presence of peptides shared between…”
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A Five-Week Periodized Carbohydrate Diet Does Not Improve Maximal Lactate Steady-State Exercise Capacity and Substrate Oxidation in Well-Trained Cyclists compared to a High-Carbohydrate Diet by Prieto-Bellver, Gorka, Diaz-Lara, Javier, Bishop, David J, Fernández-Sáez, José, Abián-Vicén, Javier, San-Millan, Iñigo, Santos-Concejero, Jordan

“…There is a growing interest in studies involving carbohydrate (CHO) manipulation and subsequent adaptations to endurance training. This study aimed to analyze…”
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Identification of substrates for human deubiquitinating enzymes (DUBs): An up-to-date review and a case study for neurodevelopmental disorders by Elu, Nagore, Osinalde, Nerea, Ramirez, Juanma, Presa, Natalia, Rodriguez, Jose Antonio, Prieto, Gorka, Mayor, Ugo

“…Similar to the reversal of kinase-mediated protein phosphorylation by phosphatases, deubiquitinating enzymes (DUBs) oppose the action of E3 ubiquitin ligases…”
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Altered Nuclear Export Signal Recognition as a Driver of Oncogenesis by Taylor, Justin, Sendino, Maria, Gorelick, Alexander N, Pastore, Alessandro, Chang, Matthew T, Penson, Alexander V, Gavrila, Elena I, Stewart, Connor, Melnik, Ella M, Herrejon Chavez, Florisela, Bitner, Lillian, Yoshimi, Akihide, Lee, Stanley Chun-Wei, Inoue, Daichi, Liu, Bo, Zhang, Xiao J, Mato, Anthony R, Dogan, Ahmet, Kharas, Michael G, Chen, Yuhong, Wang, Demin, Soni, Rajesh K, Hendrickson, Ronald C, Prieto, Gorka, Rodriguez, Jose A, Taylor, Barry S, Abdel-Wahab, Omar

“…Altered expression of XPO1, the main nuclear export receptor in eukaryotic cells, has been observed in cancer, and XPO1 has been a focus of anticancer drug…”
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Proteome-wide search for functional motifs altered in tumors: Prediction of nuclear export signals inactivated by cancer-related mutations by Prieto, Gorka, Fullaondo, Asier, Rodríguez, Jose A.

“…Large-scale sequencing projects are uncovering a growing number of missense mutations in human tumors. Understanding the phenotypic consequences of these…”
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Enhanced Missing Proteins Detection in NCI60 Cell Lines Using an Integrative Search Engine Approach by Guruceaga, Elizabeth, Garin-Muga, Alba, Prieto, Gorka, Bejarano, Bartolomé, Marcilla, Miguel, Marín-Vicente, Consuelo, Perez-Riverol, Yasset, Casal, J. Ignacio, Vizcaíno, Juan Antonio, Corrales, Fernando J, Segura, Victor

“…The Human Proteome Project (HPP) aims deciphering the complete map of the human proteome. In the past few years, significant efforts of the HPP teams have been…”
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PACOM: A Versatile Tool for Integrating, Filtering, Visualizing, and Comparing Multiple Large Mass Spectrometry Proteomics Data Sets by Martínez-Bartolomé, Salvador, Medina-Aunon, J. Alberto, López-García, Miguel Ángel, González-Tejedo, Carmen, Prieto, Gorka, Navajas, Rosana, Salazar-Donate, Emilio, Fernández-Costa, Carolina, Yates, John R, Albar, Juan Pablo

“…Mass-spectrometry-based proteomics has evolved into a high-throughput technology in which numerous large-scale data sets are generated from diverse analytical…”
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Proteogenomics Dashboard for the Human Proteome Project by Tabas-Madrid, Daniel, Alves-Cruzeiro, Joao, Segura, Victor, Guruceaga, Elizabeth, Vialas, Vital, Prieto, Gorka, García, Carlos, Corrales, Fernando J, Albar, Juan Pablo, Pascual-Montano, Alberto

“…dasHPPboard is a novel proteomics-based dashboard that collects and reports the experiments produced by the Spanish Human Proteome Project consortium (SpHPP)…”
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The Bioenergetics Of The Tour De France: 754 by San-Millan, Inigo, Prieto-Bellver, Gorka

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The Bioenergetics Of The Tour De France: 754 by San-Millan, Inigo, Prieto-Bellver, Gorka

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Empirical DVB-T2 Thresholds for Fixed Reception by Eizmendi, I., Prieto, G., Berjon-Eriz, G., Landa, I., Velez, M.

“…This paper provides minimum C/N values for correct reception of DVB-T2 signals under fixed reception conditions. The C/N values are obtained after analyzing…”
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A standardized framing for reporting protein identifications in mzIdentML 1.2 by Seymour, Sean L., Farrah, Terry, Binz, Pierre-Alain, Chalkley, Robert J., Cottrell, John S., Searle, Brian C., Tabb, David L., Vizcaíno, Juan Antonio, Prieto, Gorka, Uszkoreit, Julian, Eisenacher, Martin, Martínez-Bartolomé, Salvador, Ghali, Fawaz, Jones, Andrew R.

“…Inferring which protein species have been detected in bottom‐up proteomics experiments has been a challenging problem for which solutions have been maturing…”
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SIR: Deterministic protein inference from peptides assigned to MS data by Matthiesen, Rune, Prieto, Gorka, Amorim, Antonio, Aloria, Kerman, Fullaondo, Asier, Carvalho, Ana S., Arizmendi, Jesus M.

“…Currently the bottom up approach is the most popular for characterizing protein samples by mass spectrometry. This is mainly attributed to the fact that the…”
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Application of full-reference video quality metrics in IPTV by Sedano, Inigo, Prieto, Gorka, Brunnstrom, Kjell, Kihl, Maria, Montalban, Jon

“…Executing an accurate full-reference metric such as VQM can take minutes in an average computer for just one user. Therefore, it can be unfeasible to analyze…”
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Surfing Transcriptomic Landscapes. A Step beyond the Annotation of Chromosome 16 Proteome by Segura, Víctor, Medina-Aunon, Juan Alberto, Mora, Maria I, Martínez-Bartolomé, Salvador, Abian, Joaquín, Aloria, Kerman, Antúnez, Oreto, Arizmendi, Jesús M, Azkargorta, Mikel, Barceló-Batllori, Silvia, Beaskoetxea, Jabier, Bech-Serra, Joan J, Blanco, Francisco, Monteiro, Mariana B, Cáceres, David, Canals, Francesc, Carrascal, Monserrat, Casal, José Ignacio, Clemente, Felipe, Colomé, Nuria, Dasilva, Noelia, Díaz, Paula, Elortza, Félix, Fernández-Puente, Patricia, Fuentes, Manuel, Gallardo, Oscar, Gharbi, Severine I, Gil, Concha, González-Tejedo, Carmen, Hernáez, María Luisa, Lombardía, Manuel, Lopez-Lucendo, Maria, Marcilla, Miguel, Mato, José M, Mendes, Marta, Oliveira, Eliandre, Orera, Irene, Pascual-Montano, Alberto, Prieto, Gorka, Ruiz-Romero, Cristina, Sánchez del Pino, Manuel M, Tabas-Madrid, Daniel, Valero, Maria L, Vialas, Vital, Villanueva, Joan, Albar, Juan Pablo, Corrales, Fernando J

“…The Spanish team of the Human Proteome Project (SpHPP) marked the annotation of Chr16 and data analysis as one of its priorities. Precise annotation of…”
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