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Ugis Sarkans · SciRah

Researcher profile · Semantic Scholar

Ugis Sarkans

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Ugis Sarkans — researcher profile on SciRah

h-index: 36
Works: 80
Citations: 13K

Most-cited papers

Minimum information about a microarray experiment (MIAME)—toward standards for microarray data
A. Brazma, P. Hingamp, John Quackenbush, G. Sherlock +20 more
2001Nature Genetics4,272 citations
Semantic Scholar
ArrayExpress—a public repository for microarray gene expression data at the EBI
H. Parkinson, Ugis Sarkans, Mohammadreza Shojatalab, Niran Abeygunawardena +14 more
2004Nucleic Acids Res.1,205 citations Open access
Semantic Scholar
ArrayExpress—a public database of microarray experiments and gene expression profiles
H. Parkinson, M. Kapushesky, Mohammadreza Shojatalab, Niran Abeygunawardena +12 more
2006Nucleic Acids Res.748 citations Open access
Semantic Scholar
ArrayExpress update—simplifying data submissions
N. Kolesnikov, Emma Hastings, M. Keays, O. Melnichuk +14 more
2014Nucleic Acids Res.702 citations Open access
Semantic Scholar
The HUPO PSI's Molecular Interaction format—a community standard for the representation of protein interaction data
H. Hermjakob, L. Montecchi-Palazzi, Gary D. Bader, J. Wojcik +35 more
2004Nature Biotechnology682 citations
Semantic Scholar
ArrayExpress update – from bulk to single-cell expression data
Awais Athar, Anja Füllgrabe, Nancy George, Haider Iqbal +8 more
2018Nucleic Acids Res.522 citations Open access
Semantic Scholar
Design and implementation of microarray gene expression markup language (MAGE-ML)
P. Spellman, Michael Miller, Jason E. Stewart, Charles Troup +22 more
2002Genome Biology492 citations Open access
Semantic Scholar
ArrayExpress update—from an archive of functional genomics experiments to the atlas of gene expression
H. Parkinson, M. Kapushesky, N. Kolesnikov, Gabriella Rustici +30 more
2008Nucleic Acids Res.459 citations Open access
Semantic Scholar
ArrayExpress update—trends in database growth and links to data analysis tools
Gabriella Rustici, N. Kolesnikov, Marco Brandizi, Tony Burdett +22 more
2012Nucleic Acids Res.388 citations Open access
Semantic Scholar
ArrayExpress update—an archive of microarray and high-throughput sequencing-based functional genomics experiments
H. Parkinson, Ugis Sarkans, N. Kolesnikov, Niran Abeygunawardena +18 more
2010Nucleic Acids Res.374 citations Open access
Semantic Scholar
The Image Data Resource: A Bioimage Data Integration and Publication Platform
Eleanor Williams, Josh Moore, Simon W. Li, Gabriella Rustici +9 more
2017Nature Methods289 citations Open access
Semantic Scholar
The BioStudies database—one stop shop for all data supporting a life sciences study
Ugis Sarkans, Mikhail Gostev, Awais Athar, Ehsan Behrangi +8 more
2017Nucleic Acids Res.218 citations Open access
Semantic Scholar
Biomarkers in autism spectrum disorder: the old and the new
B. Ruggeri, Ugis Sarkans, G. Schumann, A. Persico
2013Psychopharmacology185 citations Open access
Semantic Scholar
Discovering and Linking Public ‘Omics’ Datasets using the Omics Discovery Index
Yasset Pérez-Riverol, Mingze Bai, Felipe da Veiga Leprevost, S. Squizzato +30 more
2017Nature Biotechnology167 citations Open access
Semantic Scholar
Standards for systems biology
A. Brazma, M. Krestyaninova, Ugis Sarkans
2006Nature reviews genetics161 citations
Semantic Scholar
A simple spreadsheet-based , MIAME-supportive format for microarray data
Tim F. Rayner, P. Rocca-Serra, P. Spellman, Helen C. Causton +16 more
2006156 citations
Semantic Scholar
The BioImage Archive - building a home for life-sciences microscopy data
Matthew Hartley, G. Kleywegt, A. Patwardhan, Ugis Sarkans +2 more
2021bioRxiv148 citations Open access
Semantic Scholar
ArrayExpress - a public repository for microarray gene expression data at the EBI
A. Brazma, H. Parkinson, Ugis Sarkans, Mohammadreza Shojatalab +9 more
2003Nucleic Acids Res.146 citations Open access
Semantic Scholar
A Genome-Wide Metabolic QTL Analysis in Europeans Implicates Two Loci Shaped by Recent Positive Selection
G. Nicholson, M. Rantalainen, Jia V. Li, A. D. Maher +25 more
2011PLoS Genetics140 citations Open access
Semantic Scholar
Expression Profiler: next generation - an online platform for analysis of microarray data
M. Kapushesky, P. Kemmeren, A. Culhane, S. Durinck +7 more
2004Nucleic Acids Res.129 citations Open access
Semantic Scholar
REMBI: Recommended Metadata for Biological Images—enabling reuse of microscopy data in biology
Ugis Sarkans, Wah Chiu, L. Collinson, M. Darrow +42 more
2021Nature Methods115 citations Open access
Semantic Scholar
The Functional Genomics Experiment model (FuGE): an extensible framework for standards in functional genomics
Andrew R. Jones, Michael Miller, R. Aebersold, R. Apweiler +21 more
2007Nature Biotechnology108 citations
Semantic Scholar
A call for public archives for biological image data
J. Ellenberg, J. Swedlow, Mary Barlow, Charles E. Cook +4 more
2018Nature Methods103 citations Open access
Semantic Scholar
From ArrayExpress to BioStudies
Ugis Sarkans, Anja Füllgrabe, Ahmed Ali, Awais Athar +10 more
2020Nucleic Acids Res.100 citations Open access
Semantic Scholar
ArrayExpress: a public database of gene expression data at EBI.
P. Rocca-Serra, A. Brazma, H. Parkinson, Ugis Sarkans +11 more
2003Comptes rendus. Biologies88 citations Open access
Semantic Scholar
The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences
R. Drysdale, Charles E. Cook, R. Petryszak, Vivienne Baillie-Gerritsen +41 more
2019bioRxiv64 citations Open access
Semantic Scholar
The BioSample Database (BioSD) at the European Bioinformatics Institute
Mikhail Gostev, Adam Faulconbridge, Marco Brandizi, J. Fernandez-Banet +3 more
2011Nucleic Acids Res.62 citations Open access
Semantic Scholar
A global view of standards for open image data formats and repositories
J. Swedlow, P. Kankaanpää, Ugis Sarkans, W. Goscinski +13 more
2020Nature Methods59 citations Open access
Semantic Scholar
The ArrayExpress gene expression database: a software engineering and implementation perspective
Ugis Sarkans, Helen E. Parkinson, Gonzalo Garcia Lara, Ahmet Oezcimen +12 more
2005Bioinform.52 citations
Semantic Scholar
The EU-ToxRisk method documentation, data processing and chemical testing pipeline for the regulatory use of new approach methods
Alice Krebs, B. V. van Vugt-Lussenburg, T. Waldmann, Wiebke Albrecht +41 more
2020Archives of Toxicology49 citations Open access
Semantic Scholar
Network integration and modelling of dynamic drug responses at multi-omics levels
N. Selevsek, F. Caiment, R. Nudischer, H. Gmuender +39 more
2020Communications Biology45 citations Open access
Semantic Scholar
Data storage and analysis in ArrayExpress.
A. Brazma, M. Kapushesky, H. Parkinson, Ugis Sarkans +1 more
2006Methods in Enzymology45 citations
Semantic Scholar
Updates to BioSamples database at European Bioinformatics Institute
Adam Faulconbridge, Tony Burdett, Marco Brandizi, Mikhail Gostev +5 more
2013Nucleic Acids Res.41 citations Open access
Semantic Scholar
The BioStudies database
J. Mcentyre, Ugis Sarkans, A. Brazma
2015Molecular Systems Biology39 citations Open access
Semantic Scholar
graph2tab, a library to convert experimental workflow graphs into tabular formats
Marco Brandizi, N. Kurbatova, Ugis Sarkans, Philippe Rocca-Serra
2012Bioinform.38 citations Open access
Semantic Scholar
MicrobioRaman: an open-access web repository for microbiological Raman spectroscopy data
K. Lee, Zachary C. Landry, Awais Athar, Uria Alcolombri +57 more
2024Nature Microbiology37 citations Open access
Semantic Scholar
A System for Information Management in BioMedical Studies—SIMBioMS
M. Krestyaninova, A. Zarins, Juris Vīksna, N. Kurbatova +12 more
2009Bioinform.33 citations Open access
Semantic Scholar
diXa: a data infrastructure for chemical safety assessment
Diana M. Hendrickx, H. Aerts, F. Caiment, Dominic Clark +20 more
2014Bioinform.32 citations Open access
Semantic Scholar
Microarray data representation, annotation and storage.
A. Brazma, Ugis Sarkans, A. Robinson, J. Vilo +3 more
2002Advances in Biochemical Engineering/Biotechnology32 citations
Semantic Scholar
“Be sustainable”: EOSC‐Life recommendations for implementation of FAIR principles in life science data handling
Romain David, A. Rybina, Jean-Marie Burel, J. Hériché +55 more
2023EMBO Journal29 citations Open access
Semantic Scholar
PASSIM – an open source software system for managing information in biomedical studies
Juris Vīksna, E. Celms, Mārtiņš Opmanis, K. Podnieks +8 more
2007BMC Bioinformatics28 citations Open access
Semantic Scholar
A model-based assay design to reproduce in vivo patterns of acute drug-induced toxicity
L. Kuepfer, O. Clayton, C. Thiel, Henrik Cordes +20 more
2017Archives of Toxicology26 citations Open access
Semantic Scholar
The discovAIR project: a roadmap towards the Human Lung Cell Atlas
M. Luecken, L. Zaragosi, E. Madissoon, L. Sikkema +36 more
2022European Respiratory Journal19 citations Open access
Semantic Scholar
The European Nucleotide Archive in 2025
D. Yuan, Alisha Ahamed, Awais Athar, R. Devaraj +24 more
2025Nucleic Acids Research18 citations Open access
Semantic Scholar
Multi-omics HeCaToS dataset of repeated dose toxicity for cardiotoxic & hepatotoxic compounds
M. Verheijen, Ugis Sarkans, W. Wolski, D. Jennen +53 more
2022Scientific Data17 citations Open access
Semantic Scholar
Data Storage and Analysis in ArrayExpress and Expression Profiler
Gabriella Rustici, M. Kapushesky, N. Kolesnikov, H. Parkinson +2 more
2008Current Protocols in Bioinformatics16 citations
Semantic Scholar
The Image Data Resource: A Scalable Platform for Biological Image Data Access, Integration, and Dissemination
Eleanor Williams, Josh Moore, Simon W. Li, Gabriella Rustici +9 more
2016bioRxiv12 citations Open access
Semantic Scholar
EMBL’s European Bioinformatics Institute (EMBL-EBI) in 2024
Matthew Thakur, C. Brooksbank, R. Finn, Helen V. Firth +22 more
2024Nucleic Acids Research11 citations Open access
Semantic Scholar
Cellular phenotype database: a repository for systems microscopy data
Catherine Kirsanova, A. Brazma, Gabriella Rustici, Ugis Sarkans
2015Bioinform.11 citations Open access
Semantic Scholar
Plant-Based Microarray Data at the European Bioinformatics Institute. Introducing AtMIAMExpress, a Submission Tool for Arabidopsis Gene Expression Data to ArrayExpress
Gaurab Mukherjee, Niran Abeygunawardena, H. Parkinson, S. Contrino +11 more
2005Plant Physiology11 citations Open access
Semantic Scholar

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A. Brazma×34
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H. Parkinson×16
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Ele Holloway×9
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M. Kapushesky×9
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Mohammadreza Shojatalab

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