Ioannis Xénarios

37.2k citations

171 papers · 14.3k indexed · 7 hit papers · h-index 52

Molecular Biology top 0.2%
Plant Science top 1%
Computational Theory and Mathematics top 0.2%
Genetics top 1%
Immunology top 2%

Co-authors: David Eisenberg Lydie Bougueleret Alan Bridge Edward M. Marcotte Edouard de Castro Luis Mendoza Beatrice Cuche Lorenzo Cerutti
Topics: Genomics and Phylogenetic Studies (31 papers)Bioinformatics and Genomic Networks (28 papers)Microbial Metabolic Engineering and Bioproduction (22 papers)
Cited by: Molecular Biology Computational Theory and Mathematics Plant Science
Journals: Nature Cell Proceedings of the National Academy of Sciences
Partner nations: Switzerland United States United Kingdom

In The Last Decade

Ioannis Xénarios

165 papers receiving 14.0k citations

Hit Papers

5 papers align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions

2002 1.3k citations Ioannis Xénarios profile →
New and continuing developments at PROSITE

2012 1.1k citations Edouard de Castro, Alan Bridge et al. profile →
T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension

2011 869 citations Ioannis Xénarios et al. profile →
DIP: the Database of Interacting Proteins

2000 813 citations Ioannis Xénarios profile →
UniProtKB/Swiss-Prot, the Manually Annotated Section of the UniProt KnowledgeBase: How to Use the Entry View

2015 581 citations Alan Bridge, Sylvain Poux et al. profile →
Protein function in the post-genomic era

2000 536 citations David Eisenberg, Edward M. Marcotte et al. profile →
Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling

2012 489 citations Markus V. Kohnen, Martine Trévisan et al. profile →

Peers

Countries citing papers authored by Ioannis Xénarios

Since Specialization

Citations

This map shows the geographic impact of Ioannis Xénarios's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Ioannis Xénarios with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Ioannis Xénarios more than expected).

Fields of papers citing papers by Ioannis Xénarios

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Ioannis Xénarios. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Ioannis Xénarios. The network helps show where Ioannis Xénarios may publish in the future.

Co-authorship network of co-authors of Ioannis Xénarios

This figure shows the co-authorship network connecting the top 25 collaborators of Ioannis Xénarios. A scholar is included among the top collaborators of Ioannis Xénarios based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Ioannis Xénarios. Ioannis Xénarios is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

Sort: Min cites: Since: Top N: Style:

20 of 20 papers shown

#	Work	Indexed citations
1	A Multi-Omics Framework for Decoding Disease Mechanisms: Insights From Methylmalonic Aciduria 2025 ·Molecular & Cellular Proteomics ·Jianbo Fu,Vito Riccardo Tomaso Zanotelli,Cédric Howald,(unknown),(unknown),Ioannis Xénarios,D. Sean Froese,Bernd Wollscheid,Patrick G. A. Pedrioli,Sandra Goetze	2
2	Seq2scFv: a toolkit for the comprehensive analysis of display libraries from long-read sequencing platforms 2024 ·mAbs ·(unknown),Luca Santuari,Emanuel Schmid‐Siegert,(unknown),Ioannis Xénarios,Alaaddin Bulak Arpat	0
3	Improving population scale statistical phasing with whole-genome sequencing data 2024 ·PLoS Genetics ·(unknown),Robin J. Hofmeister,Ioannis Xénarios,Yann Thoma,Olivier Delaneau	0
4	Repeat Detector: versatile sizing of expanded tandem repeats and identification of interrupted alleles from targeted DNA sequencing 2022 ·NAR Genomics and Bioinformatics ·Alysha Taylor,(unknown),Nastassia Gobet,(unknown),Branduff McAllister,Lorène Aeschbach,Emma Randall,(unknown),(unknown),(unknown),Marc Ciosi,(unknown),Nathaniel J. Hafford‐Tear,Alice E. Davidson,Thomas H. Massey,Darren G. Monckton,Lesley Jones,(unknown),Ioannis Xénarios,Vincent Dion	7
5	PamgeneAnalyzeR: open and reproducible pipeline for kinase profiling 2020 ·Bioinformatics ·(unknown),(unknown),Nicolas Guex,Lluís Fajas,Ioannis Xénarios,Isabel C. López‐Mejía	4
6	HAMAP as SPARQL rules—A portable annotation pipeline for genomes and proteomes 2020 ·GigaScience ·Jerven Bolleman,Edouard de Castro,Delphine Baratin,Sébastien Géhant,(unknown),Andrea H Auchincloss,Elisabeth Coudert,Chantal Hulo,Patrick Masson,Ivo Pedruzzi,Catherine Rivoire,Ioannis Xénarios,Nicole Redaschi,Alan Bridge	7
7	Virosaurus A Reference to Explore and Capture Virus Genetic Diversity 2020 ·Viruses ·Anne Gleizes,Florian Laubscher,Nicolas Guex,Christian Iseli,Thomas Junier,Samuel Cordey,Jacques Fellay,Ioannis Xénarios,Laurent Kaiser,Philippe Le Mercier	8
8	Setting the basis of best practices and standards for curation and annotation of logical models in biology—highlights of the [BC]2 2019 CoLoMoTo/SysMod Workshop 2020 ·Briefings in Bioinformatics ·Anna Niarakis,Martin Kuiper,Marek Ostaszewski,Rahuman S. Malik‐Sheriff,Cristina Casals‐Casas,Denis Thieffry,Tom C. Freeman,Paul D. Thomas,Vasundra Touré,Vincent Noël,Gautier Stoll,Julio Sáez-Rodríguez,Aurélien Naldi,(unknown),Ioannis Xénarios,Sylvain Soliman,Claudine Chaouiya,Tomáš Helikar,Laurence Calzone	13
9	Sleep–wake-driven and circadian contributions to daily rhythms in gene expression and chromatin accessibility in the murine cortex 2019 ·Proceedings of the National Academy of Sciences ·Charlotte N. Hor,Jake Yeung,Maxime Jan,Yann Emmenegger,Jeffrey Hubbard,Ioannis Xénarios,Félix Naef,Paul Franken	58
10	Incorporating heterogeneous sampling probabilities in continuous phylogeographic inference — Application to H5N1 spread in the Mekong region 2019 ·Bioinformatics ·Simon Dellicour,Philippe Lemey,Jean Artois,Tommy Tsan‐Yuk Lam,Alice Fusaro,Isabella Monne,Giovanni Cattoli,(unknown),Ioannis Xénarios,Gwenae͏̈lle Dauphin,Wantanee Kalpravidh,Sophie von Dobschuetz,Filip Claes,Scott H. Newman,Marc A. Suchard,Guy Baele,Marius Gilbert	16
11	Scaling up data curation using deep learning: An application to literature triage in genomic variation resources 2018 ·PLoS Computational Biology ·Kyubum Lee,Maria Livia Famiglietti,Aoife McMahon,Chih-Hsuan Wei,Jacqueline A. L. MacArthur,Sylvain Poux,Lionel Breuza,Alan Bridge,Fiona Cunningham,Ioannis Xénarios,Zhiyong Lu	30
12	Estimating the Contribution of Proteasomal Spliced Peptides to the HLA-I Ligandome* 2018 ·Molecular & Cellular Proteomics ·(unknown),Ilan Beer,Christian Iseli,Chloé Chong,(unknown),David Gfeller,George Coukos,Ioannis Xénarios,Markus Müller,Michal Bassani‐Sternberg	74
13	Local auxin production underlies a spatially restricted neighbor-detection response in Arabidopsis 2017 ·Proceedings of the National Academy of Sciences ·(unknown),Anne-Sophie Fiorucci,Ioannis Xénarios,Christian Fankhauser	74
14	Bacterial Virus Ontology; Coordinating across Databases 2017 ·Viruses ·Chantal Hulo,Patrick Masson,Ariane Toussaint,David Osumi-Sutherland,Edouard de Castro,Andrea H Auchincloss,Sylvain Poux,Lydie Bougueleret,Ioannis Xénarios,Philippe Le Mercier	2
15	The ins and outs of eukaryotic viruses: Knowledge base and ontology of a viral infection 2017 ·PLoS ONE ·Chantal Hulo,Patrick Masson,Edouard de Castro,Andrea H Auchincloss,Rebecca E. Foulger,Sylvain Poux,Jane Lomax,Lydie Bougueleret,Ioannis Xénarios,Philippe Le Mercier	7
16	Global mapping of highly pathogenic avian influenza H5N1 and H5Nx clade 2.3.4.4 viruses with spatial cross-validation 2016 ·eLife ·Madhur Dhingra,Jean Artois,Timothy P. Robinson,Catherine Linard,(unknown),Ioannis Xénarios,Robin Engler,Robin Liechti,Dmitry Kuznetsov,Xiangming Xiao,Sophie von Dobschuetz,Filip Claes,Scott H. Newman,Gwenae͏̈lle Dauphin,Marius Gilbert	42
17	Neighbor Detection Induces Organ-Specific Transcriptomes, Revealing Patterns Underlying Hypocotyl-Specific Growth 2016 ·The Plant Cell ·Markus V. Kohnen,Emanuel Schmid‐Siegert,Martine Trévisan,Laure Allenbach Petrolati,Fabien Sénéchal,Patricia Müller-Moulé,Julin Maloof,Ioannis Xénarios,Christian Fankhauser	133
18	TIE-2 and VEGFR Kinase Activities Drive Immunosuppressive Function of TIE-2–Expressing Monocytes in Human Breast Tumors 2013 ·Clinical Cancer Research ·Mark Ibberson,(unknown),Nicolas Guex,(unknown),Assia Ifticene‐Treboux,Luc Henry,Hans‐Anton Lehr,Jean-François Delaloye,George Coukos,Ioannis Xénarios,Marie‐Agnès Doucey	32
19	Evolution of the Ferric Reductase Domain (FRD) Superfamily: Modularity, Functional Diversification, and Signature Motifs 2013 ·PLoS ONE ·Xuezhi Zhang,Karl‐Heinz Krause,Ioannis Xénarios,Thierry Soldati,Brigitte Boeckmann	72
20	Localizing proteins in the cell from their phylogenetic profiles 2000 ·Proceedings of the National Academy of Sciences ·Edward M. Marcotte,Ioannis Xénarios,Alexander M. van der Bliek,David Eisenberg	174

About Ioannis Xénarios

Ioannis Xénarios is a scholar working on Molecular Biology, Genetics and Immunology, having authored 171 papers that have together received 14.3k indexed citations. Recurring topics across this work include Genomics and Phylogenetic Studies (31 papers), Bioinformatics and Genomic Networks (28 papers) and Microbial Metabolic Engineering and Bioproduction (22 papers). The work is most often cited by research in Molecular Biology (10.3k citations), Computational Theory and Mathematics (1.2k citations) and Plant Science (2.0k citations). Ioannis Xénarios has collaborated with scholars based in Switzerland, United States and United Kingdom. Frequent co-authors include David Eisenberg, Lydie Bougueleret, Alan Bridge, Edward M. Marcotte, Edouard de Castro, Luis Mendoza, Beatrice Cuche, Lorenzo Cerutti, Nicolas Hulo and Christian J A Sigrist. Their work appears in journals such as Nature, Cell and Proceedings of the National Academy of Sciences.

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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