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J

José M. Fernández

Barcelona Supercomputing Center
H指数:27
被引数:4,322

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Benchmarking standard-of-care and emerging genomic approaches to enhance diagnosis in pediatric acute lymphoblastic leukemia

比较标准护理与新兴基因组学方法在儿童急性淋巴细胞白血病诊断中的应用效果

British Journal of Cancer
IF6.8
2025-09-300
OA
José Vicente Gil; Gayane Avetisyan; Alberto Miralles; Sandra de las Heras; Álvaro Díaz-González; Carolina López-Benet; María del Cañizo; Ana Vicente; Rafael Andreu; Carolina Fuentes; José María Fernández; Eva Barragán; Esperanza Such; Marta Llop
WorkflowHub: a registry for computational workflows
Scientific Data
IF6.9
2025-05-210
OAAI
Ove Johan Ragnar Gustafsson; Sean R. Wilkinson; Finn Bacall; Stian Soiland-Reyes; Simone Leo; Luca Pireddu; Stuart Owen; Nick Juty; José M. Fernández; Tom Brown; Hervé Ménager; Björn Grüning; Salvador Capella-Gutierrez; Frederik Coppens; Carole Goble
PretoxTM: a text mining system for extracting treatment-related findings from preclinical toxicology reports
JOURNAL OF CHEMINFORMATICS
IF5.7
2025-02-030
OAAI
Corvi, Javier; Diaz-Roussel, Nicolas; Fernandez, Jose M.; Ronzano, Francesco; Centeno, Emilio; Accuosto, Pablo; Ibrahim, Celine; Asakura, Shoji; Bringezu, Frank; Frohlicher, Mirjam; Kreuchwig, Annika; Nogami, Yoko; Rih, Jeong; Rodriguez-Esteban, Raul; Sajot, Nicolas; Wichard, Joerg; Wu, Heng-Yi Michael; Drew, Philip; Steger-Hartmann, Thomas; Valencia, Alfonso; Furlong, Laura I.; Capella-Gutierrez, Salvador
Systematic assessment of long-read RNA-seq methods for transcript identification and quantification

用于转录本鉴定和定量的长读rna-seq方法的系统评估

NATURE METHODS
IF32.1
2024-06-0715
OAAI
Pardo-Palacios, Francisco J.; Wang, Dingjie; Reese, Fairlie; Diekhans, Mark; Carbonell-Sala, Silvia; Williams, Brian; Loveland, Jane E.; De Maria, Maite; Adams, Matthew S.; Balderrama-Gutierrez, Gabriela; Behera, Amit K.; Gonzalez Martinez, Jose M.; Hunt, Toby; Lagarde, Julien; Liang, Cindy E.; Li, Haoran; Meade, Marcus Jerryd; Moraga Amador, David A.; Prjibelski, Andrey D.; Birol, Inanc; Bostan, Hamed; Brooks, Ashley M.; Celik, Muhammed Hasan; Chen, Ying; Du, Mei R. M.; Felton, Colette; Goeke, Jonathan; Hafezqorani, Saber; Herwig, Ralf; Kawaji, Hideya; Lee, Joseph; Li, Jian-Liang; Lienhard, Matthias; Mikheenko, Alla; Mulligan, Dennis; Nip, Ka Ming; Pertea, Mihaela; Ritchie, Matthew E.; Sim, Andre D.; Tang, Alison D.; Wan, Yuk Kei; Wang, Changqing; Wong, Brandon Y.; Yang, Chen; Barnes, If; Berry, Andrew E.; Capella-Gutierrez, Salvador; Cousineau, Alyssa; Dhillon, Namrita; Fernandez-Gonzalez, Jose M.; Ferrandez-Peral, Luis; Garcia-Reyero, Natalia; Goetz, Stefan; Hernandez-Ferrer, Carles; Kondratova, Liudmyla; Liu, Tianyuan; Martinez-Martin, Alessandra; Menor, Carlos; Mestre-Tomas, Jorge; Mudge, Jonathan M.; Panayotova, Nedka G.; Paniagua, Alejandro; Repchevsky, Dmitry; Ren, Xingjie; Rouchka, Eric; Saint-John, Brandon; Sapena, Enrique; Sheynkman, Leon; Smith, Melissa Laird; Suner, Marie-Marthe; Takahashi, Hazuki; Youngworth, Ingrid A.; Carninci, Piero; Denslow, Nancy D.; Guigo, Roderic; Hunter, Margaret E.; Maehr, Rene; Shen, Yin; Tilgner, Hagen U.; Wold, Barbara J.; Vollmers, Christopher; Frankish, Adam; Au, Kin Fai; Sheynkman, Gloria M.; Mortazavi, Ali; Conesa, Ana; Brooks, Angela N.
Comprehensive detection of CRLF2 alterations in acute lymphoblastic leukemia: a rapid and accurate novel approach

急性淋巴细胞白血病CRLF2改变的综合检测: 一种快速准确的新方法

FRONTIERS IN MOLECULAR BIOSCIENCES
IF4
2024-02-023
OAAI
Gil, Jose Vicente; Miralles, Alberto; de las Heras, Sandra; Such, Esperanza; Avetisyan, Gayane; Diaz-Gonzalez, Alvaro; Santiago, Marta; Fuentes, Carolina; Fernandez, Jose Maria; Lloret, Pilar; Navarro, Irene; Montesinos, Pau; Llop, Marta; Barragan, Eva
WOMBAT-P: Benchmarking Label-Free Proteomics Data Analysis Workflows

Wombat-p: 基准测试无标签蛋白质组学数据分析工作流程

JOURNAL OF PROTEOME RESEARCH
IF3.6
2023-12-012
OA
Bouyssie, David; Altiner, Pinar; Capella-Gutierrez, Salvador; Fernandez, Jose M.; Hagemeijer, Yanick Paco; Horvatovich, Peter; Hubalek, Martin; Levander, Fredrik; Mauri, Pierluigi; Palmblad, Magnus; Raffelsberger, Wolfgang; Rodriguez-Navas, Laura; Di Silvestre, Dario; Kunkli, Balazs Tibor; Uszkoreit, Julian; Vandenbrouck, Yves; Vizcaino, Juan Antonio; Winkelhardt, Dirk; Schwammle, Veit
Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data

从rna-seq数据鉴定和定量聚腺苷酸化位点的方法的可扩展基准测试

RNA
IF5
2023-10-106
OAAI
Bryce-Smith, Sam; Burri, Dominik; Gazzara, Matthew R.; Herrmann, Christina J.; Danecka, Weronika; Fitzsimmons, Christina M.; Wan, Yuk Kei; Zhuang, Farica; Fansler, Mervin M.; Fernandez, Jose M.; Ferret, Meritxell; Gonzalez-Uriarte, Asier; Haynes, Samuel; Herdman, Chelsea; Kanitz, Alexander; Katsantoni, Maria; Marini, Federico; McDonnel, Euan; Nicolet, Ben; Poon, Chi-Lam; Rot, Gregor; Scharfen, Leonard; Wu, Pin-Jou; Yoon, Yoseop; Barash, Yoseph; Zavolan, Mihaela
The RD-Connect Genome-Phenome Analysis Platform: Accelerating diagnosis, research, and gene discovery for rare diseases
HUMAN MUTATION
IF3.7
2022-02-1732
OAAI
Laurie, Steven; Piscia, Davide; Matalonga, Leslie; Corvo, Alberto; Fernandez-Callejo, Marcos; Garcia-Linares, Carles; Hernandez-Ferrer, Carles; Luengo, Cristina; Martinez, Ines; Papakonstantinou, Anastasios; Pico-Amador, Daniel; Protasio, Joan; Thompson, Rachel; Tonda, Raul; Bayes, Monica; Bullich, Gemma; Camps-Puchadas, Jordi; Paramonov, Ida; Trotta, Jean-Remi; Alonso, Angel; Attimonelli, Marcella; Beroud, Christophe; Bros-Facer, Virginie; Buske, Orion J.; Canada-Pallares, Andres; Fernandez, Jose M.; Hansson, Mats G.; Horvath, Rita; Jacobsen, Julius O. B.; Kaliyaperumal, Rajaram; Lair-Preterre, Severine; Licata, Luana; Lopes, Pedro; Lopez-Martin, Estrella; Mascalzoni, Deborah; Monaco, Lucia; Perez-Jurado, Luis A.; Posada de la Paz, Manuel; Rambla, Jordi; Rath, Ana; Riess, Olaf; Robinson, Peter N.; Salgado, David; Smedley, Damian; Spalding, Dylan; 't Hoen, Peter A. C.; Topf, Ana; Zaharieva, Irina; Graessner, Holm; Gut, Ivo G.; Lochmuller, Hanns; Beltran, Sergi
The eTRANSAFE Project on Translational Safety Assessment through Integrative Knowledge Management: Achievements and Perspectives
PHARMACEUTICALS
IF4.8
2021-03-0819
OAAI
Pognan, Francois; Steger-Hartmann, Thomas; Diaz, Carlos; Blomberg, Niklas; Bringezu, Frank; Briggs, Katharine; Callegaro, Giulia; Capella-Gutierrez, Salvador; Centeno, Emilio; Corvi, Javier; Drew, Philip; Drewe, William C.; Fernandez, Jose M.; Furlong, Laura I.; Guney, Emre; Kors, Jan A.; Mayer, Miguel Angel; Pastor, Manuel; Pinero, Janet; Ramirez-Anguita, Juan Manuel; Ronzano, Francesco; Rowell, Philip; Sauch-Pitarch, Josep; Valencia, Alfonso; van de Water, Bob; van der Lei, Johan; van Mulligen, Erik; Sanz, Ferran
The Quest for Orthologs benchmark service and consensus calls in 2020
NUCLEIC ACIDS RESEARCH
IF13.1
2020-05-0621
OAAI
Altenhoff, Adrian M.; Garrayo-Ventas, Javier; Cosentino, Salvatore; Emms, David; Glover, Natasha M.; Hernandez-Plaza, Ana; Nevers, Yannis; Sundesha, Vicky; Szklarczyk, Damian; Fernandez, Jose M.; Codo, Laia; Li Gelpi, Josep; Huerta-Cepas, Jaime; Iwasaki, Wataru; Kelly, Steven; Lecompte, Odile; Muffato, Matthieu; Martin, Maria J.; Capella-Gutierrez, Salvador; Thomas, Paul D.; Sonnhammer, Erik; Dessimoz, Christophe
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

CAFA challenge报告通过实验筛选改善了数百个基因的蛋白质功能预测和新功能注释

GENOME BIOLOGY
IF9.4
2019-11-19264
OAAI
Zhou, Naihui; Jiang, Yuxiang; Bergquist, Timothy R.; Lee, Alexandra J.; Kacsoh, Balint Z.; Crocker, Alex W.; Lewis, Kimberley A.; Georghiou, George; Nguyen, Huy N.; Hamid, Md Nafiz; Davis, Larry; Dogan, Tunca; Atalay, Volkan; Rifaioglu, Ahmet S.; Dalkiran, Alperen; Atalay, Rengul Cetin; Zhang, Chengxin; Hurto, Rebecca L.; Freddolino, Peter L.; Zhang, Yang; Bhat, Prajwal; Supek, Fran; Fernandez, Jose M.; Gemovic, Branislava; Perovic, Vladimir R.; Davidovic, Radoslav S.; Sumonja, Neven; Veljkovic, Nevena; Asgari, Ehsaneddin; Mofrad, Mohammad R. K.; Profiti, Giuseppe; Savojardo, Castrense; Martelli, Pier Luigi; Casadio, Rita; Boecker, Florian; Schoof, Heiko; Kahanda, Indika; Thurlby, Natalie; McHardy, Alice C.; Renaux, Alexandre; Saidi, Rabie; Gough, Julian; Freitas, Alex A.; Antczak, Magdalena; Fabris, Fabio; Wass, Mark N.; Hou, Jie; Cheng, Jianlin; Wang, Zheng; Romero, Alfonso E.; Paccanaro, Alberto; Yang, Haixuan; Goldberg, Tatyana; Zhao, Chenguang; Holm, Liisa; Toronen, Petri; Medlar, Alan J.; Zosa, Elaine; Borukhov, Itamar; Novikov, Ilya; Wilkins, Angela; Lichtarge, Olivier; Chi, Po-Han; Tseng, Wei-Cheng; Linial, Michal; Rose, Peter W.; Dessimoz, Christophe; Vidulin, Vedrana; Dzeroski, Saso; Sillitoe, Ian; Das, Sayoni; Lees, Jonathan Gill; Jones, David T.; Wan, Cen; Cozzetto, Domenico; Fa, Rui; Torres, Mateo; Vesztrocy, Alex Warwick; Rodriguez, Jose Manuel; Tress, Michael L.; Frasca, Marco; Notaro, Marco; Grossi, Giuliano; Petrini, Alessandro; Re, Matteo; Valentini, Giorgio; Mesiti, Marco; Roche, Daniel B.; Reeb, Jonas; Ritchie, David W.; Aridhi, Sabeur; Alborzi, Seyed Ziaeddin; Devignes, Marie-Dominique; Koo, Da Chen Emily; Bonneau, Richard; Gligorijevic, Vladimir; Barot, Meet; Fang, Hai; Toppo, Stefano; Lavezzo, Enrico; Falda, Marco; Berselli, Michele; Tosatto, Silvio C. E.; Carraro, Marco; Piovesan, Damiano; Rehman, Hafeez Ur; Mao, Qizhong; Zhang, Shanshan; Vucetic, Slobodan; Black, Gage S.; Jo, Dane; Suh, Erica; Dayton, Jonathan B.; Larsen, Dallas J.; Omdahl, Ashton R.; McGuffin, Liam J.; Brackenridge, Danielle A.; Babbitt, Patricia C.; Yunes, Jeffrey M.; Fontana, Paolo; Zhang, Feng; Zhu, Shanfeng; You, Ronghui; Zhang, Zihan; Dai, Suyang; Yao, Shuwei; Tian, Weidong; Cao, Renzhi; Chandler, Caleb; Amezola, Miguel; Johnson, Devon; Chang, Jia-Ming; Liao, Wen-Hung; Liu, Yi-Wei; Pascarelli, Stefano; Frank, Yotam; Hoehndorf, Robert; Kulmanov, Maxat; Boudellioua, Imane; Politano, Gianfranco; Di Carlo, Stefano; Benso, Alfredo; Hakala, Kai; Ginter, Filip; Mehryary, Farrokh; Kaewphan, Suwisa; Bjorne, Jari; Moen, Hans; Tolvanen, Martti E. E.; Salakoski, Tapio; Kihara, Daisuke; Jain, Aashish; Smuc, Tomislav; Altenhoff, Adrian; Ben-Hur, Asa; Rost, Burkhard; Brenner, Steven E.; Orengo, Christine A.; Jeffery, Constance J.; Bosco, Giovanni; Hogan, Deborah A.; Martin, Maria J.; O'Donovan, Claire; Mooney, Sean D.; Greene, Casey S.; Radivojac, Predrag; Friedberg, Iddo
Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types
GENOME BIOLOGY
IF9.4
2017-01-2693
OAAI
Ecker, Simone; Chen, Lu; Pancaldi, Vera; Bagger, Frederik O.; Maria Fernandez, Jose; de Santa Pau, Enrique Carrillo; Juan, David; Mann, Alice L.; Watt, Stephen; Casale, Francesco Paolo; Sidiropoulos, Nikos; Rapin, Nicolas; Merkel, Angelika; Stunnenberg, Hendrik G.; Stegle, Oliver; Frontini, Mattia; Downes, Kate; Pastinen, Tomi; Kuijpers, Taco W.; Rico, Daniel; Valencia, Alfonso; Beck, Stephan; Soranzo, Nicole; Paul, Dirk S.
The BLUEPRINT Data Analysis Portal
CELL SYSTEMS
IF7.7
2016-11-0197
OAAI
Maria Fernandez, Jose; de la Torre, Victor; Richardson, David; Royo, Romina; Puiggros, Montserrat; Moncunill, Valenti; Fragkogianni, Stamatina; Clarke, Laura; Flicek, Paul; Rico, Daniel; Torrents, David; de Santa Pau, Enrique Carrillo; Valencia, Alfonso
An expanded evaluation of protein function prediction methods shows an improvement in accuracy

蛋白质功能预测方法的扩展评估显示准确性有所提高

GENOME BIOLOGY
IF9.4
2016-09-07280
OAAI
Jiang, Yuxiang; Oron, Tal Ronnen; Clark, Wyatt T.; Bankapur, Asma R.; D'Andrea, Daniel; Lepore, Rosalba; Funk, Christopher S.; Kahanda, Indika; Verspoor, Karin M.; Ben-Hur, Asa; Koo, Da Chen Emily; Penfold-Brown, Duncan; Shasha, Dennis; Youngs, Noah; Bonneau, Richard; Lin, Alexandra; Sahraeian, Sayed M. E.; Martelli, Pier Luigi; Profiti, Giuseppe; Casadio, Rita; Cao, Renzhi; Zhong, Zhaolong; Cheng, Jianlin; Altenhoff, Adrian; Skunca, Nives; Dessimoz, Christophe; Dogan, Tunca; Hakala, Kai; Kaewphan, Suwisa; Mehryary, Farrokh; Salakoski, Tapio; Ginter, Filip; Fang, Hai; Smithers, Ben; Oates, Matt; Gough, Julian; Toronen, Petri; Koskinen, Patrik; Holm, Liisa; Chen, Ching-Tai; Hsu, Wen-Lian; Bryson, Kevin; Cozzetto, Domenico; Minneci, Federico; Jones, David T.; Chapman, Samuel; Dukka, B. K. C.; Khan, Ishita K.; Kihara, Daisuke; Ofer, Dan; Rappoport, Nadav; Stern, Amos; Cibrian-Uhalte, Elena; Denny, Paul; Foulger, Rebecca E.; Hieta, Reija; Legge, Duncan; Lovering, Ruth C.; Magrane, Michele; Melidoni, Anna N.; Mutowo-Meullenet, Prudence; Pichler, Klemens; Shypitsyna, Aleksandra; Li, Biao; Zakeri, Pooya; ElShal, Sarah; Tranchevent, Leon-Charles; Das, Sayoni; Dawson, Natalie L.; Lee, David; Lees, Jonathan G.; Sillitoe, Ian; Bhat, Prajwal; Nepusz, Tamas; Romero, Alfonso E.; Sasidharan, Rajkumar; Yang, Haixuan; Paccanaro, Alberto; Gillis, Jesse; Sedeno-Cortes, Adriana E.; Pavlidis, Paul; Feng, Shou; Cejuela, Juan M.; Goldberg, Tatyana; Hamp, Tobias; Richter, Lothar; Salamov, Asaf; Gabaldon, Toni; Marcet-Houben, Marina; Supek, Fran; Gong, Qingtian; Ning, Wei; Zhou, Yuanpeng; Tian, Weidong; Falda, Marco; Fontana, Paolo; Lavezzo, Enrico; Toppo, Stefano; Ferrari, Carlo; Giollo, Manuel; Piovesan, Damiano; Tosatto, Silvio C. E.; del Pozo, Angela; Fernandez, Jose M.; Maietta, Paolo; Valencia, Alfonso; Tress, Michael L.; Benso, Alfredo; Di Carlo, Stefano; Politano, Gianfranco; Savino, Alessandro; Rehman, Hafeez Ur; Re, Matteo; Mesiti, Marco; Valentini, Giorgio; Bargsten, Joachim W.; van Dijk, Aalt D. J.; Gemovic, Branislava; Glisic, Sanja; Perovic, Vladmir; Veljkovic, Veljko; Veljkovic, Nevena; Almeida-e-Silva, Danillo C.; Vencio, Ricardo Z. N.; Sharan, Malvika; Vogel, Joerg; Kansakar, Lakesh; Zhang, Shanshan; Vucetic, Slobodan; Wang, Zheng; Sternberg, Michael J. E.; Wass, Mark N.; Huntley, Rachael P.; Martin, Maria J.; O'Donovan, Claire; Robinson, Peter N.; Moreau, Yves; Tramontano, Anna; Babbitt, Patricia C.; Brenner, Steven E.; Linial, Michal; Orengo, Christine A.; Rost, Burkhard; Greene, Casey S.; Mooney, Sean D.; Friedberg, Iddo; Radivojac, Predrag

研究方向

暂未获取到该数据
A
Alfonso Valencia
H 指数:127论文数:867被引数:8.1万
S
Salvador Capella-Gutiérrez
H 指数:39论文数:223被引数:2.2万
J
Javier Corvi
H 指数:4论文数:9被引数:70
C
Christophe Dessimoz
H 指数:57论文数:221被引数:1.7万
M
María Martin
H 指数:55论文数:216被引数:3.6万
A
Adrian Altenhoff
H 指数:28论文数:100被引数:4,728
J
José Manuel Rodrı́guez
H 指数:33论文数:82被引数:1.4万
C
Christine Orengo
H 指数:73论文数:364被引数:2.4万
F
Frank Bringezu
H 指数:23论文数:61被引数:1,702
V
Vladimir Perović
H 指数:22论文数:87被引数:2,072