Хайлтын үр дүнгүүд - Jonathan M. Mudge

Үр дүнг сайжруулах
  1. 1
    Creating reference gene annotation for the mouse C57BL6/J genome assembly

    Creating reference gene annotation for the mouse C57BL6/J genome assembly -н Jonathan M. Mudge, Jennifer Harrow

    Хэвлэсэн 2015
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    Artigo
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  2. 2
    The state of play in higher eukaryote gene annotation

    The state of play in higher eukaryote gene annotation -н Jonathan M. Mudge, Jennifer Harrow

    Хэвлэсэн 2016
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    Revisão
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  3. 3
    Functional transcriptomics in the post-ENCODE era

    Functional transcriptomics in the post-ENCODE era -н Jonathan M. Mudge, Adam Frankish, Jennifer Harrow

    Хэвлэсэн 2013
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    Artigo
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  4. 4
    Evidence for a novel overlapping coding sequence in POLG initiated at a CUG start codon

    Evidence for a novel overlapping coding sequence in POLG initiated at a CUG start codon -н Yousuf A. Khan, Irwin Jungreis, James C. Wright, Jonathan M. Mudge, Jyoti S. Choudhary, Andrew E. Firth, Manolis Kellis

    Хэвлэсэн 2020
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    Artigo
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  5. 5
    Improving GENCODE reference gene annotation using a high-stringency proteogenomics workflow

    Improving GENCODE reference gene annotation using a high-stringency proteogenomics workflow -н James C. Wright, Jonathan M. Mudge, Hendrik Weisser, Mitra Barzine, José M. González, Alvis Brāzma, Jyoti S. Choudhary, Jennifer Harrow

    Хэвлэсэн 2016
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    Artigo
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  6. 6
    The Origins, Evolution, and Functional Potential of Alternative Splicing in Vertebrates

    The Origins, Evolution, and Functional Potential of Alternative Splicing in Vertebrates -н Jonathan M. Mudge, Adam Frankish, Julio Fernandez-Banet, Tyler Alioto, Thomas Derrien, C. Howald, Alexandre Reymond, Roderic Guigó, Tim Hubbard, Jennifer Harrow

    Хэвлэсэн 2011
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    Artigo
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  7. 7
    Dynamic instability of the Major Urinary Protein gene family revealed by genomic and phenotypic comparisons between C57 and 129 strain mice

    Dynamic instability of the Major Urinary Protein gene family revealed by genomic and phenotypic comparisons between C57 and 129 strain mice -н Jonathan M. Mudge, Stuart D. Armstrong, Stuart McLaren, Robert J. Beynon, Jane L. Hurst, Christine Nicholson, Duncan H. L. Robertson, Laurens Wilming, Jennifer Harrow

    Хэвлэсэн 2008
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    Artigo
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  8. 8
    The Vertebrate Genome Annotation browser 10 years on

    The Vertebrate Genome Annotation browser 10 years on -н Jennifer Harrow, Charles A. Steward, Adam Frankish, James Gilbert, José M. González, Jane Loveland, Jonathan M. Mudge, Dan Sheppard, Mark Thomas, Stephen J. Trevanion, Laurens Wilming

    Хэвлэсэн 2013
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    Artigo
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  9. 9
    Comparison of GENCODE and RefSeq gene annotation and the impact of reference geneset on variant effect prediction

    Comparison of GENCODE and RefSeq gene annotation and the impact of reference geneset on variant effect prediction -н Adam Frankish, Barbara Uszczyńska, Graham R. S. Ritchie, José M. González, Dmitri D. Pervouchine, Robert Petryszak, Jonathan M. Mudge, Nuno A. Fonseca, Alvis Brāzma, Roderic Guigó, Jennifer Harrow

    Хэвлэсэн 2015
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    Artigo
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  10. 10
    What Can Ribo-Seq, Immunopeptidomics, and Proteomics Tell Us About the Noncanonical Proteome?

    What Can Ribo-Seq, Immunopeptidomics, and Proteomics Tell Us About the Noncanonical Proteome? -н John R. Prensner, Jennifer G. Abelin, Leron W. Kok, Karl R. Clauser, Jonathan M. Mudge, Jorge Ruiz‐Orera, Michal Bassani‐Sternberg, Robert L. Moritz, Eric W. Deutsch, Sebastiaan van Heesch

    Хэвлэсэн 2023
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    Artigo
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  11. 11
    Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci

    Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci -н Jonathan M. Mudge, Irwin Jungreis, Toby Hunt, José M. González, James C. Wright, Mike Kay, Claire Davidson, Stephen Fitzgerald, Ruth L. Seal, Susan Tweedie, Liang He, Robert M. Waterhouse, Yue Li, Elspeth A. Bruford, Jyoti S. Choudhary, Adam Frankish, Manolis Kellis

    Хэвлэсэн 2019
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    Artigo
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  12. 12
    Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq)

    Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq) -н Julien Lagarde, Barbara Uszczyńska-Ratajczak, Javier Santoyo‐López, José M. González, Electra Tapanari, Jonathan M. Mudge, Charles A. Steward, Laurens Wilming, Andrea Tanzer, Cédric Howald, Jacqueline Chrast, Alicia Vela‐Boza, Antonio Rueda, Francisco J. López-Domingo, Joaquı́n Dopazo, Alexandre Reymond, Roderic Guigó, Jennifer Harrow

    Хэвлэсэн 2016
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    Artigo
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  13. 13
    Evolutionary origins and interactomes of human, young microproteins and small peptides translated from short open reading frames

    Evolutionary origins and interactomes of human, young microproteins and small peptides translated from short open reading frames -н Clara-Louisa Sandmann, Jana Felicitas Schulz, Jorge Ruiz‐Orera, Marieluise Kirchner, Matthias Ziehm, Eleonora Adami, Maike Marczenke, Annabel Christ, Nina Liebe, Johannes F. W. Greiner, Aaron Schoenenberger, Michael B. Muecke, Ning Liang, Robert L. Moritz, Zhi Sun, Eric W. Deutsch, Michael Gotthardt, Jonathan M. Mudge, John R. Prensner, Thomas E. Willnow, Philipp Mertins, Sebastiaan van Heesch, Norbert Hübner

    Хэвлэсэн 2023
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    Artigo
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  14. 14
    Cell type specific novel lincRNAs and circRNAs in the BLUEPRINT haematopoietic transcriptomes atlas

    Cell type specific novel lincRNAs and circRNAs in the BLUEPRINT haematopoietic transcriptomes atlas -н Luigi Grassi, Osagie Izuogu, Natasha Andressa Nogueira Jorge, Denis Seyres, Mariona Bustamante, Frances Burden, Samantha Farrow, Neda Farahi, Fergal J. Martin, Adam Frankish, Jonathan M. Mudge, Myrto Kostadima, R. Petersen, John Lambourne, Sophia Rowlston, Enca Martin‐Rendon, Laura Clarke, Kate Downes, Xavier Estivill, Paul Flicek, Joost H.A. Martens, Marie‐Laure Yaspo, Hendrik G. Stunnenberg, Willem H. Ouwehand, Fábio Passetti, Ernest Turro, Mattia Frontini

    Хэвлэсэн 2019
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  15. 15
    Cell type-specific novel long non-coding RNA and circular RNA in the BLUEPRINT hematopoietic transcriptomes atlas

    Cell type-specific novel long non-coding RNA and circular RNA in the BLUEPRINT hematopoietic transcriptomes atlas -н Luigi Grassi, Osagie Izuogu, Natasha Andressa Nogueira Jorge, Denis Seyres, Mariona Bustamante, Frances Burden, Samantha Farrow, Neda Farahi, Fergal J. Martin, Adam Frankish, Jonathan M. Mudge, Myrto Kostadima, R. Petersen, John Lambourne, Sophia Rowlston, Enca Martin‐Rendon, Laura Clarke, Kate Downes, Xavier Estivill, Paul Flicek, Joost H.A. Martens, Marie‐Laure Yaspo, Hendrik G. Stunnenberg, Willem H. Ouwehand, Fábio Passetti, Ernest Turro, Mattia Frontini

    Хэвлэсэн 2020
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    Artigo
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  16. 16
    Evidence for Transcript Networks Composed of Chimeric RNAs in Human Cells

    Evidence for Transcript Networks Composed of Chimeric RNAs in Human Cells -н Sarah Djebali, Julien Lagarde, Philipp Kapranov, Vincent Lacroix, Christelle Borel, Jonathan M. Mudge, Cédric Howald, Sylvain Foissac, Catherine Ucla, Jacqueline Chrast, Paolo Ribeca, David Martı́n, Ryan R. Murray, Xinping Yang, Lila Ghamsari, Chenwei Lin, Ian Bell, Erica Dumais, Jörg Drenkow, Michael L. Tress, Josep Lluis Gelpí, Modesto Orozco, Alfonso Valencia, Nynke L. van Berkum, Bryan R. Lajoie, Marc Vidal, J Stamatoyannopoulos, Philippe Batut, Alexander Dobin, Jennifer Harrow, Tim Hubbard, Job Dekker, Adam Frankish, Kourosh Salehi‐Ashtiani, Alexandre Reymond, Stylianos E. Antonarakis, Roderic Guigó, T Gingeras

    Хэвлэсэн 2012
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    Artigo
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  17. 17
    Consensus coding sequence (CCDS) database: a standardized set of human and mouse protein-coding regions supported by expert curation

    Consensus coding sequence (CCDS) database: a standardized set of human and mouse protein-coding regions supported by expert curation -н Shashikant Pujar, Nuala A. O’Leary, Catherine M. Farrell, Jane Loveland, Jonathan M. Mudge, Craig Wallin, Carlos García Girón, Mark Diekhans, If Barnes, Ruth Bennett, Andrew Berry, Eric Cox, Claire Davidson, Tamara Goldfarb, José M. González, Toby Hunt, John K. Jackson, Vinita Joardar, Mike Kay, Vamsi K. Kodali, Fergal J. Martin, Monica McAndrews, Kelly M. McGarvey, Michael R. Murphy, Bhanu Rajput, Sanjida H Rangwala, Lillian D. Riddick, Ruth L. Seal, Marie‐Marthe Suner, David Webb, Sophia Zhu, Bronwen Aken, Elspeth A. Bruford, Carol J. Bult, Adam Frankish, Terence D. Murphy, Kim D. Pruitt

    Хэвлэсэн 2017
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    Artigo
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  18. 18
    Systematic assessment of long-read RNA-seq methods for transcript identification and quantification

    Systematic assessment of long-read RNA-seq methods for transcript identification and quantification -н Francisco J. Pardo-Palacios, Fairlie Reese, Sílvia Carbonell Sala, Mark Diekhans, Cindy Liang, Dingjie Wang, Brian A. Williams, Matthew S. Adams, Amit K. Behera, Julien Lagarde, Haoran Li, Andrey D. Prjibelski, Gabriela Balderrama-Gutierrez, Muhammed Hasan Çelik, Maite De María, Nancy D. Denslow, Natàlia García‐Reyero, Stefan Goetz, Margaret E. Hunter, Jane Loveland, Carlos Menor, David Moraga, Jonathan M. Mudge, Hazuki Takahashi, Alison D. Tang, Ingrid Youngworth, Piero Carninci, Roderic Guigó, Hagen Tilgner, B Wold, Christopher Vollmers, Gloria Sheynkman, Adam Frankish, Kin Fai Au, Ana Conesa, A Mortazavi, Angela N. Brooks

    Хэвлэсэн 2021
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  19. 19
    Detection of human unannotated microproteins by mass spectrometry-based proteomics: a community assessment

    Detection of human unannotated microproteins by mass spectrometry-based proteomics: a community assessment -н Aaron Wacholder, Eric W. Deutsch, Leron W. Kok, Jip T. van Dinter, Jiwon Lee, James C. Wright, Sébastien Leblanc, Ayodya H Jayatissa, Kevin Jiang, Ihor Arefiev, Kevin Cao, Francis Bourassa, Félix-Antoine Trifiro, Michal Bassani‐Sternberg, Pavel V. Baranov, Annelies Bogaert, Sonia Chothani, Ivo Fierro-Monti, Daria Fijałkowska, Kris Gevaert, Norbert Hübner, Jonathan M. Mudge, Jorge Ruiz‐Orera, Jana Felicitas Schulz, Juan Antonio Vizcaíno, John R. Prensner, Marie A. Brunet, Thomas F. Martínez, Sarah A. Slavoff, Xavier Roucou, Jyoti S. Choudhary, Sebastiaan van Heesch, Robert L. Moritz, Anne‐Ruxandra Carvunis

    Хэвлэсэн 2025
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  20. 20
    A joint NCBI and EMBL-EBI transcript set for clinical genomics and research

    A joint NCBI and EMBL-EBI transcript set for clinical genomics and research -н Joannella Morales, Shashikant Pujar, Jane Loveland, Alex Astashyn, Ruth Bennett, Andrew Berry, Eric Cox, Claire Davidson, Olga Ermolaeva, Catherine M. Farrell, Reham Fatima, Laurent Gil, Tamara Goldfarb, José M. González, Diana Haddad, Matthew P. Hardy, Toby Hunt, John D. Jackson, Vinita Joardar, Mike Kay, Vamsi K. Kodali, Kelly M. McGarvey, Aoife McMahon, Jonathan M. Mudge, Daniel N. Murphy, Michael R. Murphy, Bhanu Rajput, Sanjida H Rangwala, Lillian D. Riddick, Françoise Thibaud‐Nissen, Glen Threadgold, Anjana R. Vatsan, Craig Wallin, David Webb, Paul Flicek, Ewan Birney, Kim D. Pruitt, Adam Frankish, Fiona Cunningham, Terence D. Murphy

    Хэвлэсэн 2022
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    Artigo
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