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Works matching AU Sarkans, Ugis

Results: 30
    1

    Wrestling with SUMO and bio-ontologies.

    Published in:
    2006
    By:
    • Stoeckert, Christian;
    • Ball, Catherine;
    • Brazma, Alvis;
    • Brinkman, Ryan;
    • Causton, Helen;
    • Fan, Liju;
    • Fostel, Jennifer;
    • Fragoso, Gilberto;
    • Heiskanen, Mervi;
    • Holstege, Frank;
    • Morrison, Norman;
    • Parkinson, Helen;
    • Quackenbush, John;
    • Rocca-Serra, Philippe;
    • Sansone, Susanna-Assunta;
    • Sarkans, Ugis;
    • Sherlock, Gavin;
    • Stevens, Robert;
    • Taylor, Chris;
    • Taylor, Ronald
    Publication type:
    Letter
    2

    The HUPO PSI's Molecular Interaction format-a community standard for the representation of protein interaction data.

    Published in:
    Nature Biotechnology, 2004, v. 22, n. 2, p. 177, doi. 10.1038/nbt926
    By:
    • Bader, Gary;
    • Wojcik, Jérôme;
    • Salwinski, Lukasz;
    • Ceol, Arnaud;
    • Moore, Susan;
    • Orchard, Sandra;
    • Sarkans, Ugis;
    • von Mering, Christian;
    • Roechert, Bernd;
    • Poux, Sylvain;
    • Jung, Eva;
    • Mersch, Henning;
    • Kersey, Paul;
    • Lappe, Michael;
    • Yixue Li, Michael;
    • Rong Zeng;
    • Rana, Debashis;
    • Nikolski, Macha;
    • Husi, Holger;
    • Brun, Christine
    Publication type:
    Article
    3

    Multi-omics HeCaToS dataset of repeated dose toxicity for cardiotoxic & hepatotoxic compounds.

    Published in:
    Scientific Data, 2022, v. 9, n. 1, p. 1, doi. 10.1038/s41597-022-01825-1
    By:
    • Verheijen, Marcha;
    • Sarkans, Ugis;
    • Wolski, Witold;
    • Jennen, Danyel;
    • Caiment, Florian;
    • Kleinjans, Jos;
    • HeCaToS Consortium;
    • Agarkova, Irina;
    • Atkinson, Francis L.;
    • Bachmann, Ivo;
    • Baier, Vanessa;
    • Barel, Gal;
    • Bauer, Chris;
    • van den Beucken, Twan;
    • Boerno, Stefan;
    • Bosc, Nicolas;
    • Carey, Conn;
    • Castell, José V.;
    • Clayton, Olivia;
    • Cordes, Henrik
    Publication type:
    Article
    4
    5

    ArrayExpress update—an archive of microarray and high-throughput sequencing-based functional genomics experiments.

    Published in:
    Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D1002, doi. 10.1093/nar/gkq1040
    By:
    • Parkinson, Helen;
    • Sarkans, Ugis;
    • Kolesnikov, Nikolay;
    • Abeygunawardena, Niran;
    • Burdett, Tony;
    • Dylag, Miroslaw;
    • Emam, Ibrahim;
    • Farne, Anna;
    • Hastings, Emma;
    • Holloway, Ele;
    • Kurbatova, Natalja;
    • Lukk, Margus;
    • Malone, James;
    • Mani, Roby;
    • Pilicheva, Ekaterina;
    • Rustici, Gabriella;
    • Sharma, Anjan;
    • Williams, Eleanor;
    • Adamusiak, Tomasz;
    • Brandizi, Marco
    Publication type:
    Article
    6
    7

    ArrayExpress—a public repository for microarray gene expression data at the EBI.

    Published in:
    Nucleic Acids Research, 2003, v. 31, n. 1, p. 68, doi. 10.1093/nar/gkg091
    By:
    • Brazma, Alvis;
    • Parkinson, Helen;
    • Sarkans, Ugis;
    • Shojatalab, Mohammadreza;
    • Vilo, Jaak;
    • Abeygunawardena, Niran;
    • Holloway, Ele;
    • Kapushesky, Misha;
    • Kemmeren, Patrick;
    • Lara, Gonzalo Garcia;
    • Oezcimen, Ahmet;
    • Rocca-Serra, Philippe;
    • Sansone, Susanna-Assunta
    Publication type:
    Article
    8

    Minimum information about a microarray experiment (MIAME)?toward standards for microarray data.

    Published in:
    Nature Genetics, 2001, v. 29, n. 4, p. 365, doi. 10.1038/ng1201-365
    By:
    • Brazma, Alvis;
    • Hingamp, Pascal;
    • Quackenbush, John;
    • Sherlock, Gavin;
    • Spellman, Paul;
    • Stoeckert, Chris;
    • Aach, John;
    • Ansorge, Wilhelm;
    • Ball, Catherine A.;
    • Causton, Helen C.;
    • Gaasterland, Terry;
    • Glenisson, Patrick;
    • Holstege, Frank C.P.;
    • Kim, Irene F.;
    • Markowitz, Victor;
    • Matese, John C.;
    • Parkinson, Helen;
    • Robinson, Alan;
    • Sarkans, Ugis
    Publication type:
    Article
    9

    A Genome-Wide Metabolic QTL Analysis in Europeans Implicates Two Loci Shaped by Recent Positive Selection.

    Published in:
    PLoS Genetics, 2011, v. 7, n. 9, p. 1, doi. 10.1371/journal.pgen.1002270
    By:
    • Nicholson, George;
    • Rantalainen, Mattias;
    • V. Li, Jia;
    • Maher, Anthony D.;
    • Malmodin, Daniel;
    • Ahmadi, Kourosh R.;
    • Faber, Johan H.;
    • Barrett, Amy;
    • Min, Josine L.;
    • Rayner, N. William;
    • Toft, Henrik;
    • Krestyaninova, Maria;
    • Viksna, Juris;
    • Neogi, Sudeshna Guha;
    • Dumas, Marc-Emmanuel;
    • Sarkans, Ugis;
    • Donnelly, Peter;
    • Illig, Thomas;
    • Adamski, Jerzy;
    • Suhre, Karsten
    Publication type:
    Article
    10
    11
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    13
    14

    diXa: a data infrastructure for chemical safety assessment.

    Published in:
    2015
    By:
    • Hendrickx, Diana M.;
    • Aerts, Hugo J. W. L.;
    • Caiment, Florian;
    • Clark, Dominic;
    • Ebbels, Timothy M. D.;
    • Evelo, Chris T.;
    • Gmuender, Hans;
    • Hebels, Dennie G. A. J.;
    • Herwig, Ralf;
    • Hescheler, Jürgen;
    • Jennen, Danyel G. J.;
    • Jetten, Marlon J. A.;
    • Kanterakis, Stathis;
    • Keun, Hector C.;
    • Matser, Vera;
    • Overington, John P.;
    • Pilicheva, Ekaterina;
    • Sarkans, Ugis;
    • Segura-Lepe, Marcelo P.;
    • Sotiriadou, Isaia
    Publication type:
    Product Review
    15
    16

    A System for Information Management in BioMedical Studies—SIMBioMS.

    Published in:
    Bioinformatics, 2009, v. 25, n. 20, p. 2768, doi. 10.1093/bioinformatics/btp420
    By:
    • Krestyaninova, Maria;
    • Zarins, Andris;
    • Viksna, Juris;
    • Kurbatova, Natalja;
    • Rucevskis, Peteris;
    • Neogi, Sudeshna Guha;
    • Gostev, Mike;
    • Perheentupa, Teemu;
    • Knuuttila, Juha;
    • Barrett, Amy;
    • Lappalainen, Ilkka;
    • Rung, Johan;
    • Podnieks, Karlis;
    • Sarkans, Ugis;
    • McCarthy, Mark I.;
    • Brazma, Alvis
    Publication type:
    Article
    17

    Standards for systems biology.

    Published in:
    Nature Reviews Genetics, 2006, v. 7, n. 8, p. 593, doi. 10.1038/nrg1922
    By:
    • Brazma, Alvis;
    • Krestyaninova, Maria;
    • Sarkans, Ugis
    Publication type:
    Article
    18
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    20
    21

    A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB.

    Published in:
    BMC Bioinformatics, 2006, v. 7, p. 489, doi. 10.1186/1471-2105-7-489
    By:
    • Rayner, Tim F;
    • Rocca-Serra, Philippe;
    • Spellman, Paul T;
    • Causton, Helen C;
    • Farne, Anna;
    • Holloway, Ele;
    • Irizarry, Rafael A;
    • Junmin Liu;
    • Maier, Donald S;
    • Miller, Michael;
    • Petersen, Kjell;
    • Quackenbush, John;
    • Sherlock, Gavin;
    • Stoeckert Jr, Christian J;
    • White, Joseph;
    • Whetzel, Patricia L;
    • Wymore, Farrell;
    • Parkinson, Helen;
    • Sarkans, Ugis;
    • Ball, Catherine A
    Publication type:
    Article
    22

    EMBL's European Bioinformatics Institute (EMBL-EBI) in 2024.

    Published in:
    Nucleic Acids Research, 2025, v. 53, n. D1, p. D10, doi. 10.1093/nar/gkae1089
    By:
    • Thakur, Matthew;
    • Brooksbank, Catherine;
    • Finn, Robert D;
    • Firth, Helen V;
    • Foreman, Julia;
    • Freeberg, Mallory;
    • Gurwitz, Kim T;
    • Harrison, Melissa;
    • Hulcoop, David;
    • Hunt, Sarah E;
    • R. Leach, Andrew;
    • Levchenko, Mariia;
    • Marques, Diana;
    • McDonagh, Ellen M;
    • Mithani, Aziz;
    • Parkinson, Helen;
    • Perez-Riverol, Yasset;
    • Perova, Zinaida;
    • Sarkans, Ugis;
    • Tirunagari, Santosh
    Publication type:
    Article
    23

    ArrayExpress update – from bulk to single-cell expression data.

    Published in:
    Nucleic Acids Research, 2019, v. 47, n. D1, p. D711, doi. 10.1093/nar/gky964
    By:
    • Athar, Awais;
    • Füllgrabe, Anja;
    • George, Nancy;
    • Iqbal, Haider;
    • Huerta, Laura;
    • Ali, Ahmed;
    • Snow, Catherine;
    • Fonseca, Nuno A;
    • Petryszak, Robert;
    • Papatheodorou, Irene;
    • Sarkans, Ugis;
    • Brazma, Alvis
    Publication type:
    Article
    24
    25

    ArrayExpress update—simplifying data submissions.

    Published in:
    Nucleic Acids Research, 2015, v. 43, n. D1, p. D1113, doi. 10.1093/nar/gku1057
    By:
    • Kolesnikov, Nikolay;
    • Hastings, Emma;
    • Keays, Maria;
    • Melnichuk, Olga;
    • Tang, Y. Amy;
    • Williams, Eleanor;
    • Dylag, Miroslaw;
    • Kurbatova, Natalja;
    • Brandizi, Marco;
    • Burdett, Tony;
    • Megy, Karyn;
    • Pilicheva, Ekaterina;
    • Rustici, Gabriella;
    • Tikhonov, Andrew;
    • Parkinson, Helen;
    • Petryszak, Robert;
    • Sarkans, Ugis;
    • Brazma, Alvis
    Publication type:
    Article
    26
    27

    The BioStudies database.

    Published in:
    Molecular Systems Biology, 2015, v. 11, n. 12, p. n/a, doi. 10.15252/msb.20156658
    By:
    • McEntyre, Jo;
    • Sarkans, Ugis;
    • Brazma, Alvis
    Publication type:
    Article
    28

    Human metabolic profiles are stably controlled by genetic and environmental variation.

    Published in:
    Molecular Systems Biology, 2011, v. 7, n. 1, p. 1, doi. 10.1038/msb.2011.57
    By:
    • Nicholson, George;
    • Rantalainen, Mattias;
    • Maher, Anthony D;
    • Li, Jia V;
    • Malmodin, Daniel;
    • Ahmadi, Kourosh R;
    • Faber, Johan H;
    • Hallgrímsdóttir, Ingileif B;
    • Barrett, Amy;
    • Toft, Henrik;
    • Krestyaninova, Maria;
    • Viksna, Juris;
    • Neogi, Sudeshna Guha;
    • Dumas, Marc‐Emmanuel;
    • Sarkans, Ugis;
    • Silverman, Bernard W;
    • Donnelly, Peter;
    • Nicholson, Jeremy K;
    • Allen, Maxine;
    • Zondervan, Krina T
    Publication type:
    Article
    29

    Discovering and linking public omics data sets using the Omics Discovery Index.

    Published in:
    Nature Biotechnology, 2017, v. 35, n. 5, p. 406, doi. 10.1038/nbt.3790
    By:
    • Perez-Riverol, Yasset;
    • Bai, Mingze;
    • da Veiga Leprevost, Felipe;
    • Squizzato, Silvano;
    • Park, Young Mi;
    • Haug, Kenneth;
    • Carroll, Adam J;
    • Spalding, Dylan;
    • Paschall, Justin;
    • Wang, Mingxun;
    • del-Toro, Noemi;
    • Ternent, Tobias;
    • Zhang, Peng;
    • Buso, Nicola;
    • Bandeira, Nuno;
    • Deutsch, Eric W;
    • Campbell, David S;
    • Beavis, Ronald C;
    • Salek, Reza M;
    • Sarkans, Ugis
    Publication type:
    Article
    30

    The Functional Genomics Experiment model (FuGE): an extensible framework for standards in functional genomics.

    Published in:
    Nature Biotechnology, 2007, v. 25, n. 10, p. 1127, doi. 10.1038/nbt1347
    By:
    • Jones, Andrew R.;
    • Miller, Michael;
    • Aebersold, Ruedi;
    • Apweiler, Rolf;
    • Ball, Catherine A.;
    • Brazma, Alvis;
    • DeGreef, James;
    • Hardy, Nigel;
    • Hermjakob, Henning;
    • Hubbard, Simon J.;
    • Hussey, Peter;
    • Igra, Mark;
    • Jenkins, Helen;
    • Julian, Jr., Randall K.;
    • Laursen, Kent;
    • Oliver, Stephen G.;
    • Paton, Norman W.;
    • Sansone, Susanna-Assunta;
    • Sarkans, Ugis;
    • Stoeckert, Jr., Christian J.
    Publication type:
    Article