Alvis Brazma
AuthID: R-006-SPN
1
TITLE: REMBI: Recommended Metadata for Biological Images-enabling reuse of microscopy data in biology
AUTHORS: Sarkans, U; Chiu, W; Collinson, L; Darrow, MC; Ellenberg, J; Grunwald, D; Heriche, JK; Iudin, A; Martins, GG; Meehan, T; Narayan, K; Patwardhan, A; Russell, MRG; Saibil, HR; Strambio De Castillia, C; Swedlow, JR; Tischer, C; Uhlmann, V; Verkade, P; Barlow, M; ...More
PUBLISHED: 2021, SOURCE: NATURE METHODS
AUTHORS: Sarkans, U; Chiu, W; Collinson, L; Darrow, MC; Ellenberg, J; Grunwald, D; Heriche, JK; Iudin, A; Martins, GG; Meehan, T; Narayan, K; Patwardhan, A; Russell, MRG; Saibil, HR; Strambio De Castillia, C; Swedlow, JR; Tischer, C; Uhlmann, V; Verkade, P; Barlow, M; ...More
PUBLISHED: 2021, SOURCE: NATURE METHODS
INDEXED IN: 
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Scopus WOS2
TITLE: Genomic basis for RNA alterations in cancer Full Text
AUTHORS: Claudia Calabrese; PCAWG Transcriptome Core Group, ; Natalie R Davidson; Deniz Demircioğlu; Nuno A Fonseca ; Yao He; André Kahles; Kjong-Van Lehmann; Fenglin Liu; Yuichi Shiraishi; Cameron M Soulette; Lara Urban; Liliana Greger; Siliang Li; Dongbing Liu; Marc D Perry; Qian Xiang; Fan Zhang; Junjun Zhang; Peter Bailey; ...More
PUBLISHED: 2020, SOURCE: Nat., VOLUME: 578, ISSUE: 7793
AUTHORS: Claudia Calabrese; PCAWG Transcriptome Core Group, ; Natalie R Davidson; Deniz Demircioğlu; Nuno A Fonseca ; Yao He; André Kahles; Kjong-Van Lehmann; Fenglin Liu; Yuichi Shiraishi; Cameron M Soulette; Lara Urban; Liliana Greger; Siliang Li; Dongbing Liu; Marc D Perry; Qian Xiang; Fan Zhang; Junjun Zhang; Peter Bailey; ...More
PUBLISHED: 2020, SOURCE: Nat., VOLUME: 578, ISSUE: 7793
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TITLE: High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations
AUTHORS: Yiqun Zhang; Fengju Chen; Nuno A Fonseca ; Yao He; Masashi Fujita; Hidewaki Nakagawa; Zemin Zhang; Alvis Brazma; Chad J Creighton;
PUBLISHED: 2020, SOURCE: Nature Communications, VOLUME: 11, ISSUE: 1
AUTHORS: Yiqun Zhang; Fengju Chen; Nuno A Fonseca ; Yao He; Masashi Fujita; Hidewaki Nakagawa; Zemin Zhang; Alvis Brazma; Chad J Creighton;
PUBLISHED: 2020, SOURCE: Nature Communications, VOLUME: 11, ISSUE: 1
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TITLE: Gastric Microbiome Diversities in Gastric Cancer Patients from Europe and Asia Mimic the Human Population Structure and Are Partly Driven by Microbiome Quantitative Trait Loci
AUTHORS: Bruno Cavadas; Rui Camacho ; Joana C Ferreira; Rui M Ferreira; Ceu Figueiredo ; Alvis Brazma; Nuno A Fonseca ; Luisa Pereira;
PUBLISHED: 2020, SOURCE: MICROORGANISMS, VOLUME: 8, ISSUE: 8
AUTHORS: Bruno Cavadas; Rui Camacho ; Joana C Ferreira; Rui M Ferreira; Ceu Figueiredo ; Alvis Brazma; Nuno A Fonseca ; Luisa Pereira;
PUBLISHED: 2020, SOURCE: MICROORGANISMS, VOLUME: 8, ISSUE: 8
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TITLE: Expression Atlas update: from tissues to single cells Full Text
AUTHORS: Papatheodorou, I; Moreno, P; Manning, J; Fuentes, AMP; George, N; Fexova, S; Fonseca, NA ; Fullgrabe, A; Green, M; Huang, N; Huerta, L; Lqbal, H; Jianu, M; Mohammed, S; Zhao, LY; Jarnuczak, AF; Jupp, S; Marioni, J; Meyer, K; Petryszak, R; ...More
PUBLISHED: 2020, SOURCE: NUCLEIC ACIDS RESEARCH, VOLUME: 48, ISSUE: D1
AUTHORS: Papatheodorou, I; Moreno, P; Manning, J; Fuentes, AMP; George, N; Fexova, S; Fonseca, NA ; Fullgrabe, A; Green, M; Huang, N; Huerta, L; Lqbal, H; Jianu, M; Mohammed, S; Zhao, LY; Jarnuczak, AF; Jupp, S; Marioni, J; Meyer, K; Petryszak, R; ...More
PUBLISHED: 2020, SOURCE: NUCLEIC ACIDS RESEARCH, VOLUME: 48, ISSUE: D1
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TITLE: ArrayExpress update - from bulk to single-cell expression data Full Text
AUTHORS: Awais Athar; Anja Fullgrabe; Nancy George; Haider Iqbal; Laura Huerta; Ahmed Ali; Catherine Snow; Nuno A Fonseca ; Robert Petryszak; Irene Papatheodorou; Ugis Sarkans; Alvis Brazma;
PUBLISHED: 2019, SOURCE: NUCLEIC ACIDS RESEARCH, VOLUME: 47, ISSUE: D1
AUTHORS: Awais Athar; Anja Fullgrabe; Nancy George; Haider Iqbal; Laura Huerta; Ahmed Ali; Catherine Snow; Nuno A Fonseca ; Robert Petryszak; Irene Papatheodorou; Ugis Sarkans; Alvis Brazma;
PUBLISHED: 2019, SOURCE: NUCLEIC ACIDS RESEARCH, VOLUME: 47, ISSUE: D1
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TITLE: Expression Atlas: gene and protein expression across multiple studies and organisms Full Text
AUTHORS: Irene Papatheodorou; Nuno A Fonseca ; Maria Keays; Amy A Tang; Elisabet Barrera; Wojciech Bazant; Melissa Burke; Anja Füllgrabe; Alfonso Muñoz Pomer Fuentes; Nancy George; Laura Huerta; Satu Koskinen; Suhaib Mohammed; Matthew J Geniza; Justin Preece; Pankaj Jaiswal; Andrew Jarnuczak; Wolfgang Huber; Oliver Stegle; Juan Antonio Vizcaíno; ...More
PUBLISHED: 2018, SOURCE: Nucleic Acids Research, VOLUME: 46, ISSUE: Database-Issue
AUTHORS: Irene Papatheodorou; Nuno A Fonseca ; Maria Keays; Amy A Tang; Elisabet Barrera; Wojciech Bazant; Melissa Burke; Anja Füllgrabe; Alfonso Muñoz Pomer Fuentes; Nancy George; Laura Huerta; Satu Koskinen; Suhaib Mohammed; Matthew J Geniza; Justin Preece; Pankaj Jaiswal; Andrew Jarnuczak; Wolfgang Huber; Oliver Stegle; Juan Antonio Vizcaíno; ...More
PUBLISHED: 2018, SOURCE: Nucleic Acids Research, VOLUME: 46, ISSUE: Database-Issue
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TITLE: The RNASeq-er API - a gateway to systematically updated analysis of public RNA-seq data Full Text
AUTHORS: Robert Petryszak; Nuno A Fonseca ; Anja Füllgrabe; Laura Huerta; Maria Keays; Amy A Tang; Alvis Brazma;
PUBLISHED: 2017, SOURCE: Bioinformatics, VOLUME: 33, ISSUE: 14
AUTHORS: Robert Petryszak; Nuno A Fonseca ; Anja Füllgrabe; Laura Huerta; Maria Keays; Amy A Tang; Alvis Brazma;
PUBLISHED: 2017, SOURCE: Bioinformatics, VOLUME: 33, ISSUE: 14
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TITLE: Expression Atlas update - an integrated database of gene and protein expression in humans, animals and plants Full Text
AUTHORS: Robert Petryszak; Maria Keays; Amy A Tang; Nuno A Fonseca ; Elisabet Barrera; Tony Burdett; Anja Füllgrabe; Alfonso Muñoz Pomer Fuentes; Simon Jupp; Satu Koskinen; Oliver Mannion; Laura Huerta; Karine Megy; Catherine Snow; Eleanor Williams; Mitra Barzine; Emma Hastings; Hendrik Weisser; James Wright; Pankaj Jaiswal; ...More
PUBLISHED: 2016, SOURCE: Nucleic Acids Research, VOLUME: 44, ISSUE: Database-Issue
AUTHORS: Robert Petryszak; Maria Keays; Amy A Tang; Nuno A Fonseca ; Elisabet Barrera; Tony Burdett; Anja Füllgrabe; Alfonso Muñoz Pomer Fuentes; Simon Jupp; Satu Koskinen; Oliver Mannion; Laura Huerta; Karine Megy; Catherine Snow; Eleanor Williams; Mitra Barzine; Emma Hastings; Hendrik Weisser; James Wright; Pankaj Jaiswal; ...More
PUBLISHED: 2016, SOURCE: Nucleic Acids Research, VOLUME: 44, ISSUE: Database-Issue
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TITLE: Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing Full Text
AUTHORS: Pedro G Ferreira ; Martin Oti; Matthias Barann; Thomas Wieland; Suzana Ezquina; Marc R Friedländer; Manuel A Rivas; Anna Esteve-Codina; Xavier Estivill; Roderic Guigó; Emmanouil Dermitzakis; Stylianos Antonarakis; Thomas Meitinger; Tim M Strom; Aarno Palotie; Jean François Deleuze; Ralf Sudbrak; Hans Lerach; Ivo Gut; Ann-Christine Syvänen; ...More
PUBLISHED: 2016, SOURCE: SCIENTIFIC REPORTS, VOLUME: 6
AUTHORS: Pedro G Ferreira ; Martin Oti; Matthias Barann; Thomas Wieland; Suzana Ezquina; Marc R Friedländer; Manuel A Rivas; Anna Esteve-Codina; Xavier Estivill; Roderic Guigó; Emmanouil Dermitzakis; Stylianos Antonarakis; Thomas Meitinger; Tim M Strom; Aarno Palotie; Jean François Deleuze; Ralf Sudbrak; Hans Lerach; Ivo Gut; Ann-Christine Syvänen; ...More
PUBLISHED: 2016, SOURCE: SCIENTIFIC REPORTS, VOLUME: 6
