Browse by UCL people
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Number of items: 81.
Article
Abbosh, C;
Birkbak, NJ;
Wilson, GA;
Jamal-Hanjani, M;
Constantin, T;
Salari, R;
Le Quesne, J;
... Dessimoz, C; + view all
(2017)
Phylogenetic ctDNA analysis depicts early-stage lung cancer evolution.
Nature
, 545
pp. 446-451.
10.1038/nature22364.
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Altenhoff, AM;
Boeckmann, B;
Capella-Gutierrez, S;
Dalquen, DA;
DeLuca, T;
Forslund, K;
Huerta-Cepas, J;
... Dessimoz, C; + view all
(2016)
Standardized benchmarking in the quest for orthologs.
Nature Methods
, 13
(5)
pp. 425-430.
10.1038/nmeth.3830.
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Altenhoff, AM;
Garrayo-Ventas, J;
Cosentino, S;
Emms, D;
Glover, NM;
Hernández-Plaza, A;
Nevers, Y;
... Dessimoz, C; + view all
(2020)
The Quest for Orthologs benchmark service and consensus calls in 2020.
Nucleic Acids Research
10.1093/nar/gkaa308.
(In press).
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Altenhoff, AM;
Gil, M;
Gonnet, GH;
Dessimoz, C;
(2013)
Inferring hierarchical orthologous groups from orthologous gene pairs.
PLoS One
, 8
(1)
, Article e53786. 10.1371/journal.pone.0053786.
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Altenhoff, AM;
Glover, NM;
Dessimoz, C;
(2019)
Inferring Orthology and Paralogy.
Methods in Molecular Biology
, 1910
pp. 149-175.
10.1007/978-1-4939-9074-0_5.
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Altenhoff, AM;
Glover, NM;
Train, C-M;
Kaleb, K;
Warwick Vesztrocy, A;
Dylus, D;
de Farias, TM;
... Dessimoz, C; + view all
(2018)
The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces.
Nucleic Acids Research
, 46
(D1)
D477-D485.
10.1093/nar/gkx1019.
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Altenhoff, AM;
Levy, J;
Zarowiecki, M;
Tomiczek, B;
Warwick Vesztrocy, A;
Dalquen, DA;
Müller, S;
... Dessimoz, C; + view all
(2019)
OMA standalone: orthology inference among public and custom genomes and transcriptomes.
Genome Research
, 29
(7)
pp. 1152-1163.
10.1101/gr.243212.118.
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Altenhoff, AM;
Škunca, N;
Glover, N;
Train, CM;
Sueki, A;
Piližota, I;
Gori, K;
... Dessimoz, C; + view all
(2015)
The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements.
Nucleic Acids Res
, 43
(Database issue)
D240 - D249.
10.1093/nar/gku1158.
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Altenhoff, AM;
Train, C-M;
Gilbert, KJ;
Mediratta, I;
Mendes de Farias, T;
Moi, D;
Nevers, Y;
... Dessimoz, C; + view all
(2020)
OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more.
Nucleic Acids Research
10.1093/nar/gkaa1007.
(In press).
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Benton, R;
Dessimoz, C;
Moi, D;
(2020)
A putative origin of the insect chemosensory receptor superfamily in the last common eukaryotic ancestor.
eLife
, 9
, Article e62507. 10.7554/eLife.62507.
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Briand, Samuel;
Dessimoz, Christophe;
El-Mabrouk, Nadia;
Nevers, Yannis;
(2022)
A Linear Time Solution to the Labeled Robinson-Foulds Distance Problem.
Systematic Biology
10.1093/sysbio/syac028.
(In press).
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Briand, S;
Dessimoz, C;
El-Mabrouk, N;
Lafond, M;
Lobinska, G;
(2020)
A generalized Robinson-Foulds distance for labeled trees.
BMC Genomics
, 21
(Suppl 10)
, Article 779. 10.1186/s12864-020-07011-0.
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Cummings, TFM;
Gori, K;
Sanchez-Pulido, L;
Gavriilidis, G;
Moi, D;
Wilson, AR;
Murchison, E;
... Christophorou, MA; + view all
(2021)
Citrullination was introduced into animals by horizontal gene transfer from cyanobacteria.
Molecular Biology and Evolution
, Article msab317. 10.1093/molbev/msab317.
(In press).
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Dalquen, DA;
Altenhoff, AM;
Gonnet, GH;
Dessimoz, C;
(2013)
The impact of gene duplication, insertion, deletion, lateral gene transfer and sequencing error on orthology inference: a simulation study.
PLoS One
, 8
(2)
, Article e56925. 10.1371/journal.pone.0056925.
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Dalquen, DA;
Anisimova, M;
Gonnet, GH;
Dessimoz, C;
(2012)
ALF--a simulation framework for genome evolution.
Molecular Biology and Evolution
, 29
(4)
1115 - 1123.
10.1093/molbev/msr268.
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Dalquen, DA;
Dessimoz, C;
(2013)
Bidirectional Best Hits Miss Many Orthologs in Duplication-Rich Clades such as Plants and Animals.
Genome Biology and Evolution
, 5
(10)
pp. 1800-1806.
10.1093/gbe/evt132.
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Dessimoz, C;
Gil, M;
(2008)
Covariance of maximum likelihood evolutionary distances between sequences aligned pairwise.
BMC Evolutionary Biology
, 8
, Article 179. 10.1186/1471-2148-8-179.
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Dessimoz, C;
Skunca, N;
Thomas, PD;
(2013)
CAFA and the Open World of protein function predictions.
[Letter].
Trends in Genetics
, 29
(11)
pp. 609-610.
10.1016/j.tig.2013.09.005.
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Duchemin, W;
Gence, G;
Arigon Chifolleau, A-M;
Arvestad, L;
Bansal, MS;
Berry, V;
Boussau, B;
... Daubin, V; + view all
(2018)
RecPhyloXML: a format for reconciled gene trees.
Bioinformatics
, 34
(21)
pp. 3646-3652.
10.1093/bioinformatics/bty389.
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Ducrest, A-L;
Neuenschwander, S;
Schmid-Siegert, E;
Pagni, M;
Train, C;
Dylus, D;
Nevers, Y;
... Goudet, J; + view all
(2020)
New genome assembly of the barn owl (Tyto alba alba).
Ecology and Evolution
, 10
(5)
pp. 2284-2298.
10.1002/ece3.5991.
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Dylus, David;
Nevers, Yannis;
Altenhoff, Adrian M;
Gürtler, Antoine;
Dessimoz, Christophe;
Glover, Natasha M;
(2022)
How to build phylogenetic species trees with OMA [version 2; peer review: 2 approved with reservations].
F1000Research
, 9
, Article 511. 10.12688/f1000research.23790.2.
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Dylus, D;
Pillonel, T;
Opota, O;
Wüthrich, D;
Seth-Smith, HMB;
Egli, A;
Leo, S;
... Lebrand, A; + view all
(2020)
NGS-Based S. aureus Typing and Outbreak Analysis in Clinical Microbiology Laboratories: Lessons Learned From a Swiss-Wide Proficiency Test.
Frontiers in Microbiology
, 11
, Article 591093. 10.3389/fmicb.2020.591093.
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Egger, B;
Lapraz, F;
Tomiczek, B;
Müller, S;
Dessimoz, C;
Girstmair, J;
Škunca, N;
... Telford, MJ; + view all
(2015)
A Transcriptomic-Phylogenomic Analysis of the Evolutionary Relationships of Flatworms.
Curr Biol
, 25
(10)
pp. 1347-1353.
10.1016/j.cub.2015.03.034.
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Farias, TMD;
Stockinger, K;
Dessimoz, C;
(2019)
VoIDext: Vocabulary and Patterns for Enhancing Interoperable Datasets with Virtual Links.
On the Move to Meaningful Internet Systems: OTM 2019 Conferences
, 11877
pp. 607-625.
10.1007/978-3-030-33246-4.
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Forslund, K;
Pereira, C;
Capella-Gutierrez, S;
Sousa da Silva, A;
Altenhoff, A;
Huerta-Cepas, J;
Muffato, M;
... Lewis, S; + view all
(2017)
Gearing up to handle the mosaic nature of life in the quest for orthologs.
Bioinformatics
10.1093/bioinformatics/btx542.
(In press).
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Gaudet, P;
Škunca, N;
Hu, JC;
Dessimoz, C;
(2016)
Primer on the Gene Ontology.
The Gene Ontology Handbook
pp. 25-37.
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Glover, N;
Dessimoz, C;
Ebersberger, I;
Forslund, SK;
Gabaldón, T;
Huerta-Cepas, J;
Martin, M-J;
... Quest for Orthologs Consortium; + view all
(2019)
Advances and Applications in the Quest for Orthologs.
Molecular Biology and Evolution
, 36
(10)
pp. 2157-2164.
10.1093/molbev/msz150.
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Glover, N;
Sheppard, S;
Dessimoz, C;
(2021)
Homoeolog inference methods requiring bidirectional best hits or synteny miss many pairs.
Genome Biology and Evolution
10.1093/gbe/evab077.
(In press).
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Glover, NM;
Altenhoff, A;
Dessimoz, C;
(2019)
Assigning confidence scores to homoeologs using fuzzy logic.
PeerJ
, 6
, Article e6231. 10.7717/peerj.6231.
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Glover, NM;
Redestig, H;
Dessimoz, C;
(2016)
Homoeologs: What Are They and How Do We Infer Them?
Trends in Plant Science
, 21
(7)
pp. 609-621.
10.1016/j.tplants.2016.02.005.
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Gori, K;
Suchan, T;
Alvarez, N;
Goldman, N;
Dessimoz, C;
(2016)
Clustering genes of common evolutionary history.
Molecular Biology & Evolution
10.1093/molbev/msw038.
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Grass, RN;
Heckel, R;
Dessimoz, C;
Stark, WJ;
(2020)
Genomic Encryption of Digital Data Stored in Synthetic DNA.
Angewandte Chemie: International Edition
, 59
(22)
pp. 8476-8480.
10.1002/anie.202001162.
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Hodcroft, EB;
De Maio, N;
Lanfear, R;
MacCannell, DR;
Minh, BQ;
Schmidt, HA;
Stamatakis, A;
... Dessimoz, C; + view all
(2021)
Want to track pandemic variants faster? Fix the bioinformatics bottleneck.
Nature
, 591
(7848)
pp. 30-33.
10.1038/d41586-021-00525-x.
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Jamal-Hanjani, M;
Wilson, GA;
McGranahan, N;
Birkbak, NJ;
Watkins, TBK;
Veeriah, S;
Shafi, S;
... Swanton, C; + view all
(2017)
Tracking the Evolution of Non-Small-Cell Lung Cancer.
New England Journal of Medicine
, 376
(22)
pp. 2109-2121.
10.1056/NEJMoa1616288.
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Jeffares, DC;
Jolly, C;
Hoti, M;
Speed, D;
Shaw, L;
Rallis, C;
Balloux, F;
... Sedlazeck, FJ; + view all
(2017)
Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast.
Nature Communications
, 8
, Article 14061. 10.1038/ncomms14061.
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Jiang, Y;
Oron, TR;
Clark, WT;
Bankapur, AR;
D'Andrea, D;
Lepore, R;
Funk, CS;
... Radivojac, P; + view all
(2016)
An expanded evaluation of protein function prediction methods shows an improvement in accuracy.
Genome Biology
, 17
, Article 184. 10.1186/s13059-016-1037-6.
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Klopfenstein, DV;
Zhang, L;
Pedersen, BS;
Ramirez, F;
Vesztrocy, AW;
Naldi, A;
Mungall, CJ;
... Tang, H; + view all
(2018)
GOATOOLS: A Python library for Gene Ontology analyses.
Scientific Reportsvolume
, Article 10872. 10.1038/s41598-018-28948-z.
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Linard, B;
Ebersberger, I;
McGlynn, SE;
Glover, N;
Mochizuki, T;
Patricio, M;
Lecompte, O;
... Uchiyama, I; + view all
(2021)
Ten years of collaborative progress in the Quest for Orthologs.
Molecular Biology and Evolution
10.1093/molbev/msab098.
(In press).
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Mahmoud, M;
Gobet, N;
Cruz-Dávalos, DI;
Mounier, N;
Dessimoz, C;
Sedlazeck, FJ;
(2019)
Structural variant calling: the long and the short of it.
Genome Biology volume
, 20
(1)
, Article 246. 10.1186/s13059-019-1828-7.
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McGranahan, N;
Rosenthal, R;
Hiley, CT;
Rowan, AJ;
Watkins, TBK;
Wilson, GA;
Birkbak, NJ;
... Swanton, C; + view all
(2017)
Allele-Specific HLA Loss and Immune Escape in Lung Cancer Evolution.
Cell
10.1016/j.cell.2017.10.001.
(In press).
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Mietchen, D;
Wodak, S;
Wasik, S;
Szostak, N;
Dessimoz, C;
(2018)
Submit a Topic Page to PLOS Computational Biology and Wikipedia.
PLoS Computational Biology
, 14
(5)
, Article e1006137. 10.1371/journal.pcbi.1006137.
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Moi, David;
Nishio, Shunsuke;
Li, Xiaohui;
Valansi, Clari;
Langleib, Mauricio;
Brukman, Nicolas G;
Flyak, Kateryna;
... Podbilewicz, Benjamin; + view all
(2022)
Discovery of archaeal fusexins homologous to eukaryotic HAP2/GCS1 gamete fusion proteins.
Nature Communications
, 13
(1)
, Article 3880. 10.1038/s41467-022-31564-1.
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Moi, D;
Kilchoer, L;
Aguilar, PS;
Dessimoz, C;
(2020)
Scalable phylogenetic profiling using MinHash uncovers likely eukaryotic sexual reproduction genes.
PLoS Computational Biology
, 16
(7)
, Article e1007553. 10.1371/journal.pcbi.1007553.
(In press).
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Nevers, Yannis;
Jones, Tamsin EM;
Jyothi, Dushyanth;
Yates, Bethan;
Ferret, Meritxell;
Portell-Silva, Laura;
Codo, Laia;
... Altenhoff, Adrian; + view all
(2022)
The Quest for Orthologs orthology benchmark service in 2022.
Nucleic Acids Research
10.1093/nar/gkac330.
(In press).
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Nicheperovich, Alina;
Altenhoff, Adrian M;
Dessimoz, Christophe;
Majidian, Sina;
(2022)
OMAMO: orthology-based alternative model organism selection.
Bioinformatics
10.1093/bioinformatics/btac163.
(In press).
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Peng, X;
Alföldi, J;
Gori, K;
Eisfeld, AJ;
Tyler, SR;
Tisoncik-Go, J;
Brawand, D;
... Katze, MG; + view all
(2014)
The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease.
[Letter].
Nature Biotechnology
, 32
(12)
pp. 1250-1255.
10.1038/nbt.3079.
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Philippe, H;
Poustka, AJ;
Chiodin, M;
Hoff, KJ;
Dessimoz, C;
Tomiczek, B;
Schiffer, PH;
... Telford, MJ; + view all
(2019)
Mitigating Anticipated Effects of Systematic Errors Supports Sister-Group Relationship between Xenacoelomorpha and Ambulacraria.
Current Biology
, 29
(11)
pp. 1818-1826.
10.1016/j.cub.2019.04.009.
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Piližota, I;
Train, C-M;
Altenhoff, A;
Redestig, H;
Dessimoz, C;
(2018)
Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome.
Bioinformatics
, Article bty772. 10.1093/bioinformatics/bty772.
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Pomiankowski, A;
Lane, N;
Sojo, V;
Dessimoz, C;
(2016)
Membrane proteins are dramatically less conserved than water-soluble proteins across the tree of life.
Molecular Biology and Evolution
, 33
(11)
pp. 2874-2884.
10.1093/molbev/msw164.
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Prasad, A;
Kumar, SS;
Dessimoz, C;
Jaquet, V;
Bleuler, S;
Laule, O;
Hruz, T;
... Zimmermann, P; + view all
(2013)
Global regulatory architecture of human, mouse and rat tissue transcriptomes.
BMC Genomics
, 14
(716)
10.1186/1471-2164-14-716.
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Robinson, O;
Dylus, D;
Dessimoz, C;
(2016)
Phylo.io: interactive viewing and comparison of large phylogenetic trees on the web.
Molecular Biology and Evolution
, 33
(8)
pp. 2163-2166.
10.1093/molbev/msw080.
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Rossier, V;
Vesztrocy, AW;
Robinson-Rechavi, M;
Dessimoz, C;
(2021)
OMAmer: tree-driven and alignment-free protein assignment to subfamilies outperforms closest sequence approaches.
Bioinformatics
10.1093/bioinformatics/btab219.
(In press).
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Shaw, LP;
Wang, AD;
Dylus, D;
Meier, M;
Pogacnik, G;
Dessimoz, C;
Balloux, F;
(2020)
The phylogenetic range of bacterial and viral pathogens of vertebrates.
Molecular Ecology
, 29
(17)
pp. 3361-3379.
10.1111/mec.15463.
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Sima, Ana Claudia;
de Farias, Tarcisio Mendes;
Anisimova, Maria;
Dessimoz, Christophe;
Robinson-Rechavi, Marc;
Zbinden, Erich;
Stockinger, Kurt;
(2022)
Bio-SODA UX: enabling natural language question answering over knowledge graphs with user disambiguation.
Distributed and Parallel Databases
10.1007/s10619-022-07414-w.
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Sima, AC;
Dessimoz, C;
Stockinger, K;
Zahn-Zabal, M;
Mendes de Farias, T;
(2020)
A hands-on introduction to querying evolutionary relationships across multiple data sources using SPARQL [version 2; peer review: 3 approved].
F1000Research
, 8
, Article 1822. 10.12688/f1000research.21027.2.
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Sima, AC;
Dessimoz, C;
Stockinger, K;
Zahn-Zabal, M;
Mendes de Farias, T;
(2019)
A hands-on introduction to querying evolutionary relationships across multiple data sources using SPARQL [version 1; peer review: 1 approved, 2 approved with reservations].
F1000Research
, 8
, Article 1822. 10.12688/f1000research.21027.1.
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Sima, AC;
Mendes de Farias, T;
Zbinden, E;
Anisimova, M;
Gil, M;
Stockinger, H;
Stockinger, K;
... Dessimoz, C; + view all
(2019)
Enabling semantic queries across federated bioinformatics databases.
Database
, 2019
10.1093/database/baz106.
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Sonnhammer, E;
Gabaldón, T;
Wilter Sousa da Silva, A;
Martin, M;
Robinson-Rechavi, M;
Boeckmann, B;
Thomas, P;
... the Quest for Orthologs consortium; + view all
(2014)
Big Data and Other Challenges in the Quest for Orthologs.
Bioinformatics
, 30
(21)
pp. 2993-2998.
10.1093/bioinformatics/btu492.
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Suchan, T;
Espíndola, A;
Rutschmann, S;
Emerson, BC;
Gori, K;
Dessimoz, C;
Arrigo, N;
... Alvarez, N; + view all
(2017)
Assessing the potential of RAD-sequencing to resolve phylogenetic relationships within species radiations: the fly genus Chiastocheta (Diptera: Anthomyiidae) as a case study.
Molecular Phylogenetics and Evolution
, 114
pp. 189-198.
10.1016/j.ympev.2017.06.012.
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Sunnåker, M;
Busetto, AG;
Numminen, E;
Corander, J;
Foll, M;
Dessimoz, C;
(2013)
Approximate Bayesian computation.
PLoS Computational Biology
, 9
(1)
, Article e1002803. 10.1371/journal.pcbi.1002803.
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Tan, G;
Muffato, M;
Ledergerber, C;
Herrero, J;
Goldman, N;
Gil, M;
Dessimoz, C;
(2015)
Current Methods for Automated Filtering of Multiple Sequence Alignments Frequently Worsen Single-Gene Phylogenetic Inference.
Systematic Biology
, 64
(5)
pp. 778-791.
10.1093/sysbio/syv033.
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Train, C-M;
Glover, NM;
Gonnet, GH;
Altenhoff, AM;
Dessimoz, C;
(2017)
Orthologous Matrix (OMA) algorithm 2.0: more robust to asymmetric evolutionary rates and more scalable hierarchical orthologous group inference.
Bioinformatics
, 33
(14)
i75-i82.
10.1093/bioinformatics/btx229.
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Train, C-M;
Pignatelli, M;
Altenhoff, A;
Dessimoz, C;
(2019)
iHam and pyHam: visualizing and processing hierarchical orthologous groups.
Bioinformatics
, 35
(14)
pp. 2504-2506.
10.1093/bioinformatics/bty994.
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Tsagkogeorga, G;
Muller, S;
Dessimoz, C;
Rossiter, SJ;
(2017)
Comparative genomics reveals contraction in olfactory receptor genes in bats.
Scientific Reports
, 7
, Article 259. 10.1038/s41598-017-00132-9.
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Vesztrocy, AW;
Dessimoz, C;
Redestig, H;
(2018)
Prioritising candidate genes causing QTL using hierarchical orthologous groups.
Bioinformatics
, 34
(17)
i612-i619.
10.1093/bioinformatics/bty615.
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Warwick Vesztrocy, A;
Dessimoz, C;
(2020)
Benchmarking gene ontology function predictions using negative annotations.
Bioinformatics
, 36
(S1)
i210-i218.
10.1093/bioinformatics/btaa466.
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Wittwer, LD;
Piližota, I;
Altenhoff, AM;
Dessimoz, C;
(2014)
Speeding up all-against-all protein comparisons while maintaining sensitivity by considering subsequence-level homology.
PeerJ
, 2
, Article e607. 10.7717/peerj.607.
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Zahn-Zabal, M;
Dessimoz, C;
Glover, N;
(2020)
Identifying orthologs with OMA: A primer [version 1; peer review: 2 approved].
F1000Research
, 9
, Article 27. 10.12688/f1000research.21508.1.
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Zajac, N;
Zoller, S;
Seppälä, K;
Moi, D;
Dessimoz, C;
Jokela, J;
Hartikainen, H;
(2021)
Gene Duplication and Gain in the Trematode Atriophallophorus Winterbourni Contributes to Adaptation to Parasitism.
Genome Biology and Evolution
10.1093/gbe/evab010.
(In press).
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Zhou, N;
Jiang, Y;
Bergquist, TR;
Lee, AJ;
Kacsoh, BZ;
Crocker, AW;
Lewis, KA;
... Friedberg, I; + view all
(2019)
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens.
Genome Biology
, 20
(1)
, Article 244. 10.1186/s13059-019-1835-8.
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Zile, K;
Dessimoz, C;
Wurm, Y;
Masel, J;
(2020)
Only a single taxonomically restricted gene family in the Drosophila melanogaster subgroup can be identified with high confidence.
Genome Biology and Evolution
10.1093/gbe/evaa127.
(In press).
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Zimmer, F;
Harrison, PW;
Dessimoz, C;
Mank, JE;
(2016)
Compensation of dosage-sensitive genes on the chicken Z chromosome.
Genome Biology and Evolution
, 8
(4)
pp. 1233-1242.
10.1093/gbe/evw075.
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Book chapter
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Gaudet, P;
Dessimoz, C;
(2016)
Gene Ontology: Pitfalls, Biases, Remedies.
In: Dessimoz, C and Škunca, N, (eds.)
The Gene Ontology Handbook.
(pp. 189-205).
Humana Press: New York, NY.
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Huntley, RP;
Lovering, RC;
(2017)
Annotation extensions.
In: Dessimoz, C and Skunca, N, (eds.)
The Gene Ontology Handbook.
(pp. 233-243).
Humana Press: New York, NY, USA.
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Iantorno, S;
Gori, K;
Goldman, N;
Gil, M;
Dessimoz, C;
(2014)
Who Watches the Watchmen? An Appraisal of Benchmarks for Multiple Sequence Alignment.
In:
Multiple Sequence Alignment Methods.
(pp. 59-73).
Humana Press: New York, US.
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Vesztrocy, AW;
Dessimoz, C;
(2017)
A Gene Ontology Tutorial in Python.
In: Dessimoz, C and Škunca, N, (eds.)
The Gene Ontology Handbook.
(pp. 221-229).
Humana Press: New York, NY, USA.
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Proceedings paper
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Byma, S;
Dhasade, A;
Altenhoff, A;
Dessimoz, C;
Larus, JR;
(2020)
Parallel and scalable precise clustering.
In:
PACT '20: Proceedings of the ACM International Conference on Parallel Architectures and Compilation Techniques.
(pp. pp. 217-228).
ACM: Virtual event.
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Oprisanu, M-B;
Dessimoz, C;
De Cristofaro, E;
(2019)
How Much Does GenoGuard Really "Guard"? An Empirical Analysis of Long-Term Security for Genomic Data.
In: Cavallaro, Lorenzo and Kinder, Johannes, (eds.)
WPES'19: Proceedings of the 18th ACM Workshop on Privacy in the Electronic Society.
(pp. pp. 93-105).
ACM: New York, United States.
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Sima, AC;
de Farias, TMD;
Anisimova, M;
Dessimoz, C;
Robinson-Rechavi, M;
Zbinden, E;
Stockinger, K;
(2021)
Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data.
In:
Proceedings of SSDBM 2021: 33rd International Conference on Scientific and Statistical Database Management.
(pp. pp. 61-72).
Association for Computing Machinery (ACM): New York, NY, USA.
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Working / discussion paper
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Kaleb, K;
Warwick Vesztrocy, A;
Altenhoff, A;
Dessimoz, C;
(2019)
Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python.
(F1000Research
8:42).
F1000 Research Ltd.
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The CAFA Consortium;
Jones, D;
Wan, C;
Cozzetto, D;
Fa, R;
(2019)
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens.
Cold Spring Harbor Laboratory Press
(In press).
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