Search Results - "Vaca, Sebastian"

N-terminome analysis of the human mitochondrial proteome by Vaca Jacome, Alvaro Sebastian, Rabilloud, Thierry, Schaeffer-Reiss, Christine, Rompais, Magali, Ayoub, Daniel, Lane, Lydie, Bairoch, Amos, Van Dorsselaer, Alain, Carapito, Christine

“…The high throughput characterization of protein N‐termini is becoming an emerging challenge in the proteomics and proteogenomics fields. The present study…”
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Specter: linear deconvolution for targeted analysis of data-independent acquisition mass spectrometry proteomics by Peckner, Ryan, Myers, Samuel A, Jacome, Alvaro Sebastian Vaca, Egertson, Jarrett D, Abelin, Jennifer G, MacCoss, Michael J, Carr, Steven A, Jaffe, Jacob D

“…Data-independent-acquisition-based mass spectrometry enables highly reproducible proteome analysis, but results interpretation is challenging owing to the…”
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Avant-garde: an automated data-driven DIA data curation tool by Vaca Jacome, Alvaro Sebastian, Peckner, Ryan, Shulman, Nicholas, Krug, Karsten, DeRuff, Katherine C., Officer, Adam, Christianson, Karen E., MacLean, Brendan, MacCoss, Michael J., Carr, Steven A., Jaffe, Jacob D.

“…Several challenges remain in data-independent acquisition (DIA) data analysis, such as to confidently identify peptides, define integration boundaries, remove…”
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Causal interactions from proteomic profiles: Molecular data meet pathway knowledge by Babur, Özgün, Luna, Augustin, Korkut, Anil, Durupinar, Funda, Siper, Metin Can, Dogrusoz, Ugur, Vaca Jacome, Alvaro Sebastian, Peckner, Ryan, Christianson, Karen E., Jaffe, Jacob D., Spellman, Paul T., Aslan, Joseph E., Sander, Chris, Demir, Emek

“…We present a computational method to infer causal mechanisms in cell biology by analyzing changes in high-throughput proteomic profiles on the background of…”
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Minimally invasive system to reliably characterize ventricular electrophysiology from living donors by Oliván-Viguera, Aida, Pérez-Zabalza, María, García-Mendívil, Laura, Mountris, Konstantinos A., Orós-Rodrigo, Sofía, Ramos-Marquès, Estel, Vallejo-Gil, José María, Fresneda-Roldán, Pedro Carlos, Fañanás-Mastral, Javier, Vázquez-Sancho, Manuel, Matamala-Adell, Marta, Sorribas-Berjón, Fernando, Bellido-Morales, Javier André, Mancebón-Sierra, Francisco Javier, Vaca-Núñez, Alexánder Sebastián, Ballester-Cuenca, Carlos, Marigil, Miguel Ángel, Pastor, Cristina, Ordovás, Laura, Köhler, Ralf, Diez, Emiliano, Pueyo, Esther

“…Cardiac tissue slices preserve the heterogeneous structure and multicellularity of the myocardium and allow its functional characterization. However, access to…”
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Proteomic profiling dataset of chemical perturbations in multiple biological backgrounds by Dele-Oni, Deborah O., Christianson, Karen E., Egri, Shawn B., Vaca Jacome, Alvaro Sebastian, DeRuff, Katherine C., Mullahoo, James, Sharma, Vagisha, Davison, Desiree, Ko, Tak, Bula, Michael, Blanchard, Joel, Young, Jennie Z., Litichevskiy, Lev, Lu, Xiaodong, Lam, Daniel, Asiedu, Jacob K., Toder, Caidin, Officer, Adam, Peckner, Ryan, MacCoss, Michael J., Tsai, Li-Huei, Carr, Steven A., Papanastasiou, Malvina, Jaffe, Jacob D.

“…While gene expression profiling has traditionally been the method of choice for large-scale perturbational profiling studies, proteomics has emerged as an…”
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Interindividual Age-Independent Differences in Human CX43 Impact Ventricular Arrhythmic Risk by García-Mendívil, Laura, Pérez-Zabalza, María, Oliver-Gelabert, Antoni, Vallejo-Gil, José María, Fañanás-Mastral, Javier, Vázquez-Sancho, Manuel, Bellido-Morales, Javier André, Vaca-Núñez, Alexánder Sebastián, Ballester-Cuenca, Carlos, Diez, Emiliano, Ordovás, Laura, Pueyo, Esther

“…Connexin 43 (CX43) is one of the major components of gap junctions, the structures responsible for the intercellular communication and transmission of the…”
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Endolithic Algae ( Ostreobium ) Diversity in Porites Corals at the Western Atlantic and Tropical Eastern Pacific by Giraldo‐Vaca, Juan Sebastián, Sánchez, Juan Armando

“…ABSTRACT Ostreobium comprises endolithic algae commonly seen in conjunction with scleractinian corals. In the past, it was solely recognized as a coral…”
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Spiked proteomic standard dataset for testing label-free quantitative software and statistical methods by Ramus, Claire, Hovasse, Agnès, Marcellin, Marlène, Hesse, Anne-Marie, Mouton-Barbosa, Emmanuelle, Bouyssié, David, Vaca, Sebastian, Carapito, Christine, Chaoui, Karima, Bruley, Christophe, Garin, Jérôme, Cianférani, Sarah, Ferro, Myriam, Dorssaeler, Alain Van, Burlet-Schiltz, Odile, Schaeffer, Christine, Couté, Yohann, Gonzalez de Peredo, Anne

“…This data article describes a controlled, spiked proteomic dataset for which the “ground truth” of variant proteins is known. It is based on the LC-MS analysis…”
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A new methodology for the analysis and optimal setting of directional polarisation methods for overcurrent elements in line protection applications by Vaca, Sebastián, Fonseca, Antonio, Chapi, Fernando, Pérez‐Yauli, Fabián

“…Directional protection of transmission lines is an important feature in situations where short‐circuit direction must be correctly detected. The proper…”
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MetAP1 and MetAP2 drive cell selectivity for a potent anti-cancer agent in synergy, by controlling glutathione redox state by Frottin, Frédéric, Bienvenut, Willy V, Bignon, Jérôme, Jacquet, Eric, Vaca Jacome, Alvaro Sebastian, Van Dorsselaer, Alain, Cianferani, Sarah, Carapito, Christine, Meinnel, Thierry, Giglione, Carmela

“…Fumagillin and its derivatives are therapeutically useful because they can decrease cancer progression. The specific molecular target of fumagillin is…”
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Doublet N-Terminal Oriented Proteomics for N-Terminomics and Proteolytic Processing Identification by Westermann, Benoit, Jacome, Alvaro Sebastian Vaca, Rompais, Magali, Carapito, Christine, Schaeffer-Reiss, Christine

“…The study of the N-terminome and the precise identification of proteolytic processing events are key in biology. Dedicated methodologies have been developed as…”
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Tuning equations for sliding mode controllers: An optimal multi-objective approach for non-minimum phase systems by Vaca, Sebastián E., Benítez, Diego, Camacho, Oscar

“…This article proposes an approach to create tuning equations based on optimal multi-objective design specifically for Sliding Mode controllers applied to…”
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Chronological and biological aging of the human left ventricular myocardium: Analysis of microRNAs contribution by Ramos‐Marquès, Estel, García‐Mendívil, Laura, Pérez‐Zabalza, María, Santander‐Badules, Hazel, Srinivasan, Sabarathinam, Oliveros, Juan Carlos, Torres‐Pérez, Rafael, Cebollada, Alberto, Vallejo‐Gil, José María, Fresneda‐Roldán, Pedro Carlos, Fañanás‐Mastral, Javier, Vázquez‐Sancho, Manuel, Matamala‐Adell, Marta, Sorribas‐Berjón, Juan Fernando, Bellido‑Morales, Javier André, Mancebón‑Sierra, Francisco Javier, Vaca‑Núñez, Alexánder Sebastián, Ballester‐Cuenca, Carlos, Jiménez‐Navarro, Manuel, Villaescusa, José Manuel, Garrido‐Huéscar, Elisa, Segovia‐Roldán, Margarita, Oliván‐Viguera, Aida, Gómez‐González, Carlos, Muñiz, Gorka, Diez, Emiliano, Ordovás, Laura, Pueyo, Esther

“…Aging is the main risk factor for cardiovascular diseases. In humans, cardiac aging remains poorly characterized. Most studies are based on chronological age…”
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A Combined N-terminomics and Shotgun Proteomics Approach to Investigate the Responses of Human Cells to Rapamycin and Zinc at the Mitochondrial Level[S] by Bons, Joanna, Macron, Charlotte, Aude-Garcia, Catherine, Vaca-Jacome, Sebastian Alvaro, Rompais, Magali, Cianférani, Sarah, Carapito, Christine, Rabilloud, Thierry

“…The mitochondrial proteins processing system has been extensively studied with proteomics, but in a rather static way. In this work, human cells were treated…”
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Calcineurin dephosphorylates topoisomerase IIβ and regulates the formation of neuronal-activity-induced DNA breaks by Delint-Ramirez, Ilse, Konada, Lahiri, Heady, Lance, Rueda, Richard, Jacome, Alvaro Sebastian Vaca, Marlin, Eric, Marchioni, Charlotte, Segev, Amir, Kritskiy, Oleg, Yamakawa, Satoko, Reiter, Andrew H., Tsai, Li-Huei, Madabhushi, Ram

“…Neuronal activity induces topoisomerase IIβ (Top2B) to generate DNA double-strand breaks (DSBs) within the promoters of neuronal early response genes (ERGs)…”
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Sensitive, High-Throughput HLA-I and HLA-II Immunopeptidomics Using Parallel Accumulation-Serial Fragmentation Mass Spectrometry by Phulphagar, Kshiti Meera, Ctortecka, Claudia, Jacome, Alvaro Sebastian Vaca, Klaeger, Susan, Verzani, Eva K., Hernandez, Gabrielle M., Udeshi, Namrata D., Clauser, Karl R., Abelin, Jennifer G., Carr, Steven A.

“…Comprehensive and in-depth identification of the human leukocyte antigen class I (HLA-I) and class II (HLA-II) tumor immunopeptidome can inform the development…”
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Control de la Formación y Desarrollo del Bulking en una Planta de Tratamiento de Aguas Residuales con Aireación Extendida. Caso de Estudio, PTAR. Quitumbe by Enriquez, Carlos, Molineros, Oswaldo, Vaca, Sebastián

“…La Planta de Tratamiento de Aguas Residuales Quitumbe, de la ciudad de Quito, presentó Bulking en su sistema de Lodos Activados mediante Aireación Extendida,…”
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Bacterial protein signals are associated with Crohn's disease by Juste, Catherine, Kreil, David P, Beauvallet, Christian, Guillot, Alain, Vaca, Sebastian, Carapito, Christine, Mondot, Stanislas, Sykacek, Peter, Sokol, Harry, Blon, Florence, Lepercq, Pascale, Levenez, Florence, Valot, Benoît, Carré, Wilfrid, Loux, Valentin, Pons, Nicolas, David, Olivier, Schaeffer, Brigitte, Lepage, Patricia, Martin, Patrice, Monnet, Véronique, Seksik, Philippe, Beaugerie, Laurent, Ehrlich, S Dusko, Gibrat, Jean-François, Van Dorsselaer, Alain, Doré, Joël

“…No Crohn's disease (CD) molecular maker has advanced to clinical use, and independent lines of evidence support a central role of the gut microbial community…”
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Benchmarking quantitative label-free LC–MS data processing workflows using a complex spiked proteomic standard dataset by Ramus, Claire, Hovasse, Agnès, Marcellin, Marlène, Hesse, Anne-Marie, Mouton-Barbosa, Emmanuelle, Bouyssié, David, Vaca, Sebastian, Carapito, Christine, Chaoui, Karima, Bruley, Christophe, Garin, Jérôme, Cianférani, Sarah, Ferro, Myriam, Van Dorssaeler, Alain, Burlet-Schiltz, Odile, Schaeffer, Christine, Couté, Yohann, Gonzalez de Peredo, Anne

“…Proteomic workflows based on nanoLC–MS/MS data-dependent-acquisition analysis have progressed tremendously in recent years. High-resolution and fast sequencing…”
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