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| Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project Management Group Liefer Laura A. 51 Wetterstrand Kris A. 51 Good Peter J. 51 ... nature 447 (7146), 799-816, 2007 | 5999 | 2007 |
| GENCODE: the reference human genome annotation for The ENCODE Project J Harrow, A Frankish, JM Gonzalez, E Tapanari, M Diekhans, ... Genome research 22 (9), 1760-1774, 2012 | 5176 | 2012 |
| GENCODE reference annotation for the human and mouse genomes A Frankish, M Diekhans, AM Ferreira, R Johnson, I Jungreis, J Loveland, ... Nucleic acids research 47 (D1), D766-D773, 2019 | 2571 | 2019 |
| A user's guide to the encyclopedia of DNA elements (ENCODE) ENCODE Project Consortium PLoS biology 9 (4), e1001046, 2011 | 1443 | 2011 |
| Expanded encyclopaedias of DNA elements in the human and mouse genomes JE Moore, MJ Purcaro, HE Pratt, CB Epstein, N Shoresh, J Adrian, T Kawli, ... Nature 583 (7818), 699-710, 2020 | 1156 | 2020 |
| Multiple evidence strands suggest that there may be as few as 19 000 human protein-coding genes I Ezkurdia, D Juan, JM Rodriguez, A Frankish, M Diekhans, J Harrow, ... Human molecular genetics 23 (22), 5866-5878, 2014 | 763 | 2014 |
| GENCODE 2021 A Frankish, M Diekhans, I Jungreis, J Lagarde, JE Loveland, JM Mudge, ... Nucleic acids research 49 (D1), D916-D923, 2021 | 717 | 2021 |
| An expanded evaluation of protein function prediction methods shows an improvement in accuracy Y Jiang, TR Oron, WT Clark, AR Bankapur, D D’Andrea, R Lepore, ... Genome biology 17, 1-19, 2016 | 412 | 2016 |
| The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens N Zhou, Y Jiang, TR Bergquist, AJ Lee, BZ Kacsoh, AW Crocker, ... Genome biology 20, 1-23, 2019 | 351 | 2019 |
| SQANTI: extensive characterization of long-read transcript sequences for quality control in full-length transcriptome identification and quantification M Tardaguila, L De La Fuente, C Marti, C Pereira, FJ Pardo-Palacios, ... Genome research 28 (3), 396-411, 2018 | 330 | 2018 |
| Alternative splicing may not be the key to proteome complexity ML Tress, F Abascal, A Valencia Trends in biochemical sciences 42 (2), 98-110, 2017 | 326 | 2017 |
| The implications of alternative splicing in the ENCODE protein complement ML Tress, PL Martelli, A Frankish, GA Reeves, JJ Wesselink, C Yeats, ... Proceedings of the National Academy of Sciences 104 (13), 5495-5500, 2007 | 247 | 2007 |
| APPRIS: annotation of principal and alternative splice isoforms JM Rodriguez, P Maietta, I Ezkurdia, A Pietrelli, JJ Wesselink, G Lopez, ... Nucleic acids research 41 (D1), D110-D117, 2013 | 240 | 2013 |
| Progress and challenges in predicting protein–protein interaction sites I Ezkurdia, L Bartoli, P Fariselli, R Casadio, A Valencia, ML Tress Briefings in bioinformatics 10 (3), 233-246, 2009 | 211 | 2009 |
| Expanded encyclopaedias of DNA elements in the human and mouse genomes ENCODE Project Consortium Nature 583 (7818), 699-710, 2020 | 206 | 2020 |
| Extreme genomic erosion after recurrent demographic bottlenecks in the highly endangered Iberian lynx F Abascal, A Corvelo, F Cruz, JL Villanueva-Cañas, A Vlasova, ... Genome biology 17, 1-19, 2016 | 167 | 2016 |
| Assessment of predictions submitted for the CASP6 comparative modeling category M Tress, I Ezkurdia, O Grana, G López, A Valencia Proteins: Structure, Function, and Bioinformatics 61 (S7), 27-45, 2005 | 167 | 2005 |
| Chimeras taking shape: potential functions of proteins encoded by chimeric RNA transcripts M Frenkel-Morgenstern, V Lacroix, I Ezkurdia, Y Levin, A Gabashvili, ... Genome research 22 (7), 1231-1242, 2012 | 165 | 2012 |
| Successful recognition of protein folds using threading methods biased by sequence similarity and predicted secondary structure DT Jones, M Tress, K Bryson, C Hadley Proteins: Structure, Function, and Bioinformatics 37 (S3), 104-111, 1999 | 139 | 1999 |
Alfonso ValenciaICREA Professor. Barcelona Supercomputing Center.Verified email at bsc.es
