Tyler Scott Alioto - Publications

2010-2015 CNAG-CRG (Barcelona, Spain) 
genetics, computational biology

21 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Vlasova A, Capella-Gutiérrez S, Rendón-Anaya M, Hernández-Oñate M, Minoche AE, Erb I, Câmara F, Prieto-Barja P, Corvelo A, Sanseverino W, Westergaard G, Dohm JC, Pappas GJ, Saburido-Alvarez S, Kedra D, ... ... Alioto T, et al. Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes. Genome Biology. 17: 32. PMID 26911872 DOI: 10.1186/s13059-016-0883-6  1
2015 Alioto TS, Buchhalter I, Derdak S, Hutter B, Eldridge MD, Hovig E, Heisler LE, Beck TA, Simpson JT, Tonon L, Sertier AS, Patch AM, Jäger N, Ginsbach P, Drews R, et al. A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing. Nature Communications. 6: 10001. PMID 26647970 DOI: 10.1038/ncomms10001  1
2013 Alioto T, Picardi E, Guigó R, Pesole G. ASPic-GeneID: A lightweight pipeline for gene prediction and alternative isoforms detection Biomed Research International. 2013. PMID 24308000 DOI: 10.1155/2013/502827  1
2013 Steijger T, Abril JF, Engström PG, Kokocinski F, Hubbard TJ, Guigó R, Harrow J, Bertone P. Assessment of transcript reconstruction methods for RNA-seq. Nature Methods. 10: 1177-84. PMID 24185837 DOI: 10.1038/nmeth.2714  1
2013 Engström PG, Steijger T, Sipos B, Grant GR, Kahles A, Rätsch G, Goldman N, Hubbard TJ, Harrow J, Guigó R, Bertone P. Systematic evaluation of spliced alignment programs for RNA-seq data. Nature Methods. 10: 1185-91. PMID 24185836 DOI: 10.1038/nmeth.2722  1
2012 Djebali S, Davis CA, Merkel A, Dobin A, Lassmann T, Mortazavi A, Tanzer A, Lagarde J, Lin W, Schlesinger F, Xue C, Marinov GK, Khatun J, Williams BA, Zaleski C, ... ... Alioto T, et al. Landscape of transcription in human cells. Nature. 489: 101-8. PMID 22955620 DOI: 10.1038/nature11233  1
2012 Garcia-Mas J, Benjak A, Sanseverino W, Bourgeois M, Mir G, González VM, Hénaff E, Câmara F, Cozzuto L, Lowy E, Alioto T, Capella-Gutiérrez S, Blanca J, Cañizares J, Ziarsolo P, et al. The genome of melon (Cucumis melo L.). Proceedings of the National Academy of Sciences of the United States of America. 109: 11872-7. PMID 22753475 DOI: 10.1073/pnas.1205415109  1
2012 Sato S, Tabata S, Hirakawa H, Asamizu E, Shirasawa K, Isobe S, Kaneko T, Nakamura Y, Shibata D, Aoki K, Egholm M, Knight J, Bogden R, Li C, Shuang Y, ... ... Alioto T, et al. The tomato genome sequence provides insights into fleshy fruit evolution Nature. 485: 635-641. PMID 22660326 DOI: 10.1038/nature11119  1
2012 Alioto T. Gene prediction Methods in Molecular Biology. 855: 175-201. PMID 22407709 DOI: 10.1007/978-1-61779-582-4_6  1
2011 Mudge JM, Frankish A, Fernandez-Banet J, Alioto T, Derrien T, Howald C, Reymond A, Guigó R, Hubbard T, Harrow J. The origins, evolution, and functional potential of alternative splicing in vertebrates Molecular Biology and Evolution. 28: 2949-2959. PMID 21551269 DOI: 10.1093/molbev/msr127  1
2011 . A user's guide to the encyclopedia of DNA elements (ENCODE). Plos Biology. 9: e1001046. PMID 21526222 DOI: 10.1371/journal.pbio.1001046  1
2010 Richards S, Gibbs RA, Gerardo NM, Moran N, Nakabachi A, Stern D, Tagu D, Wilson ACC, Muzny D, Kovar C, Cree A, Chacko J, Chandrabose MN, Dao MD, Dinh HH, ... ... Alioto T, et al. Genome sequence of the pea aphid Acyrthosiphon pisum Plos Biology. 8. DOI: 10.1371/journal.pbio.1000313  1
2010 Ngai J, Alioto TS. Genomics of Odor Receptors in Zebrafish The Senses: a Comprehensive Reference. 4: 553-560. DOI: 10.1016/B978-012370880-9.00111-0  1
2009 Harrow J, Nagy A, Reymond A, Alioto T, Patthy L, Antonarakis SE, Guigó R. Identifying protein-coding genes in genomic sequences Genome Biology. 10: 201. PMID 19226436  1
2008 Alioto T, Guigó R. State of the art in eukaryotic gene prediction Modern Genome Annotation: the Biosapiens Network. 7-39. DOI: 10.1007/978-3-211-75123-7_2  1
2008 Alioto TS, Guigó R, Picardi E, Pesole G. GenePC and ASPIC integrate gene predictions with expressed sequence alignments to predict alternative transcripts Series On Advances in Bioinformatics and Computational Biology. 6: 363-372.  1
2007 Denoeud F, Kapranov P, Ucla C, Frankish A, Castelo R, Drenkow J, Lagarde J, Alioto T, Manzano C, Chrast J, Dike S, Wyss C, Henrichsen CN, Holroyd N, Dickson MC, et al. Prominent use of distal 5' transcription start sites and discovery of a large number of additional exons in ENCODE regions. Genome Research. 17: 746-59. PMID 17567994 DOI: 10.1101/gr.5660607  1
2007 Alioto TS. U12DB: a database of orthologous U12-type spliceosomal introns. Nucleic Acids Research. 35: D110-5. PMID 17082203 DOI: 10.1093/nar/gkl796  1
2006 Alioto TS, Ngai J. The repertoire of olfactory C family G protein-coupled receptors in zebrafish: candidate chemosensory receptors for amino acids. Bmc Genomics. 7: 309. PMID 17156446 DOI: 10.1186/1471-2164-7-309  1
2005 Alioto TS, Ngai J. The odorant receptor repertoire of teleost fish. Bmc Genomics. 6: 173. PMID 16332259 DOI: 10.1186/1471-2164-6-173  1
2004 Takehashi M, Alioto T, Stedeford T, Persad AS, Banasik M, Masliah E, Tanaka S, Ueda K. Septin 3 gene polymorphism in Alzheimer's disease. Gene Expression. 11: 263-70. PMID 15200238 DOI: 10.3727/000000003783992243  1
Show low-probability matches.