Christophe Dessimoz
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Why Is Christophe Dessimoz Influential?
(Suggest an Edit or Addition)According to Wikipedia, Christophe Dessimoz is a Swiss National Science Foundation Professor at the University of Lausanne, Associate Professor at University College London and a group leader at the Swiss Institute of Bioinformatics. He was awarded the Overton Prize in 2019 for his contributions to computational biology. Starting in April 2022, he will be joint executive director of the SIB Swiss Institute of Bioinformatics, along with Ron Appel.
Christophe Dessimoz's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- Towards practical, high-capacity, low-maintenance information storage in synthesized DNA (2013) (776)
- Allele-Specific HLA Loss and Immune Escape in Lung Cancer Evolution (2017) (772)
- Survey of Branch Support Methods Demonstrates Accuracy, Power, and Robustness of Fast Likelihood-based Approximation Schemes (2011) (734)
- GOATOOLS: A Python library for Gene Ontology analyses (2018) (510)
- Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods (2009) (402)
- Transient structural variations have strong effects on quantitative traits and reproductive isolation in fission yeast (2016) (335)
- Approximate Bayesian Computation (2013) (318)
- An expanded evaluation of protein function prediction methods shows an improvement in accuracy (2016) (316)
- Structural variant calling: the long and the short of it (2019) (282)
- OMA 2011: orthology inference among 1000 complete genomes (2010) (230)
- The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens (2019) (219)
- The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements (2014) (209)
- The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces (2017) (207)
- Inferring Horizontal Gene Transfer (2015) (204)
- Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs (2012) (198)
- Standardized benchmarking in the quest for orthologs (2016) (184)
- Standardized benchmarking in the quest for orthologs (2016) (184)
- Current Methods for Automated Filtering of Multiple Sequence Alignments Frequently Worsen Single-Gene Phylogenetic Inference (2015) (168)
- Base-calling for next-generation sequencing platforms (2011) (158)
- A Transcriptomic-Phylogenomic Analysis of the Evolutionary Relationships of Flatworms (2015) (150)
- Phylo.io: Interactive Viewing and Comparison of Large Phylogenetic Trees on the Web (2016) (150)
- The what, where, how and why of gene ontology—a primer for bioinformaticians (2011) (147)
- Algorithm of OMA for large-scale orthology inference (2008) (147)
- Inferring Hierarchical Orthologous Groups from Orthologous Gene Pairs (2013) (141)
- Homoeologs: What Are They and How Do We Infer Them? (2016) (135)
- ALF—A Simulation Framework for Genome Evolution (2011) (134)
- SWPS3 – fast multi-threaded vectorized Smith-Waterman for IBM Cell/B.E. and ×86/SSE2 (2008) (129)
- OMA Browser - Exploring orthologous relations across 352 complete genomes (2007) (129)
- Inferring orthology and paralogy. (2012) (124)
- Quality of Computationally Inferred Gene Ontology Annotations (2012) (124)
- Big data and other challenges in the quest for orthologs (2014) (122)
- Phylogenetic assessment of alignments reveals neglected tree signal in gaps (2010) (121)
- iTRAQ-based analysis of changes in the cassava root proteome reveals pathways associated with post-harvest physiological deterioration. (2011) (111)
- The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease (2014) (106)
- The Gene Ontology Handbook (2017) (99)
- Toward community standards in the quest for orthologs (2012) (97)
- Gene Ontology: Pitfalls, Biases, and Remedies. (2016) (96)
- Joining forces in the quest for orthologs (2009) (91)
- Mitigating Anticipated Effects of Systematic Errors Supports Sister-Group Relationship between Xenacoelomorpha and Ambulacraria (2019) (89)
- OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more (2020) (83)
- OMA standalone: orthology inference among public and custom genomes and transcriptomes (2018) (81)
- Bidirectional Best Hits Miss Many Orthologs in Duplication-Rich Clades such as Plants and Animals (2013) (78)
- OMA, A Comprehensive, Automated Project for the Identification of Orthologs from Complete Genome Data: Introduction and First Achievements (2005) (78)
- Want to track pandemic variants faster? Fix the bioinformatics bottleneck (2021) (75)
- Detecting non-orthology in the COGs database and other approaches grouping orthologs using genome-specific best hits (2006) (72)
- Primer on the Gene Ontology. (2016) (70)
- Orthologous Matrix (OMA) algorithm 2.0: more robust to asymmetric evolutionary rates and more scalable hierarchical orthologous group inference (2017) (68)
- Advances and Applications in the Quest for Orthologs (2019) (61)
- The phylogenetic range of bacterial and viral pathogens of vertebrates (2019) (53)
- Membrane Proteins Are Dramatically Less Conserved than Water-Soluble Proteins across the Tree of Life (2016) (52)
- Clustering Genes of Common Evolutionary History (2015) (51)
- Who watches the watchmen? An appraisal of benchmarks for multiple sequence alignment. (2012) (50)
- The Impact of Gene Duplication, Insertion, Deletion, Lateral Gene Transfer and Sequencing Error on Orthology Inference: A Simulation Study (2013) (49)
- CAFA and the open world of protein function predictions. (2013) (47)
- Evaluating the robustness of phylogenetic methods to among-site variability in substitution processes (2008) (47)
- Compensation of Dosage-Sensitive Genes on the Chicken Z Chromosome (2016) (46)
- Conceptual framework and pilot study to benchmark phylogenomic databases based on reference gene trees (2011) (45)
- Algorithm of OMA for large-scale orthology inference (2009) (39)
- Gearing up to handle the mosaic nature of life in the quest for orthologs (2017) (31)
- The Quest for Orthologs benchmark service and consensus calls in 2020 (2020) (31)
- Inferring Orthology and Paralogy. (2019) (31)
- Phylogenetic Profiling: How Much Input Data Is Enough? (2015) (31)
- Lessons Learned: Recommendations for Establishing Critical Periodic Scientific Benchmarking (2017) (29)
- Enabling semantic queries across federated bioinformatics databases (2019) (28)
- DLIGHT - Lateral Gene Transfer Detection Using Pairwise Evolutionary Distances in a Statistical Framework (2008) (25)
- Erratum: Algorithm of OMA for large-scale orthology inference (BMC Bioinformatics (2008) vol. 9 (518)) (2009) (25)
- Orthology: Definitions, Prediction, and Impact on Species Phylogeny Inference (2020) (23)
- Simple chained guide trees give poorer multiple sequence alignments than inferred trees in simulation and phylogenetic benchmarks (2015) (22)
- RecPhyloXML: a format for reconciled gene trees (2018) (18)
- Identifying orthologs with OMA: A primer (2020) (18)
- Global regulatory architecture of human, mouse and rat tissue transcriptomes (2013) (17)
- iHam and pyHam: visualizing and processing hierarchical orthologous groups (2018) (16)
- Scalable phylogenetic profiling using MinHash uncovers likely eukaryotic sexual reproduction genes (2019) (16)
- Assessing the potential of RAD-sequencing to resolve phylogenetic relationships within species radiations: The fly genus Chiastocheta (Diptera: Anthomyiidae) as a case study. (2017) (15)
- Comparative genomics reveals contraction in olfactory receptor genes in bats (2017) (14)
- Citrullination Was Introduced into Animals by Horizontal Gene Transfer from Cyanobacteria (2020) (13)
- Comparative genomics approach to detecting split-coding regions in a low-coverage genome: lessons from the chimaera Callorhinchus milii (Holocephali, Chondrichthyes) (2011) (13)
- Fast estimation of the difference between two PAM/JTT evolutionary distances in triplets of homologous sequences (2006) (13)
- Ten Years of Collaborative Progress in the Quest for Orthologs (2021) (12)
- Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python (2019) (12)
- Ten Years of Collaborative Progress in the Quest for Orthologs (2021) (12)
- Toward practical high-capacity low-maintenance storage of digital information in synthesised DNA (2013) (11)
- A generalized Robinson-Foulds distance for labeled trees (2020) (11)
- SWPS 3-fast multi-threaded vectorized (2009) (11)
- Alignments with Non-overlapping Moves, Inversions and Tandem Duplications in O ( n 4) Time (2007) (10)
- Speeding up all-against-all protein comparisons while maintaining sensitivity by considering subsequence-level homology (2014) (10)
- Orthology: definitions, inference, and impact on species phylogeny inference (2019) (9)
- A putative origin of the insect chemosensory receptor superfamily in the last common eukaryotic ancestor (2020) (9)
- NGS-Based S. aureus Typing and Outbreak Analysis in Clinical Microbiology Laboratories: Lessons Learned From a Swiss-Wide Proficiency Test (2020) (8)
- Only a Single Taxonomically Restricted Gene Family in the Drosophila melanogaster Subgroup Can Be Identified with High Confidence (2020) (8)
- Genomic encryption of digital data stored in synthetic DNA (2019) (8)
- Benchmarking gene ontology function predictions using negative annotations (2020) (8)
- How to build phylogenetic species trees with OMA (2020) (7)
- Submit a Topic Page to PLOS Computational Biology and Wikipedia (2018) (7)
- A Gene Ontology Tutorial in Python. (2017) (7)
- Covariance of maximum likelihood evolutionary distances between sequences aligned pairwise (2008) (7)
- Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data (2021) (6)
- A Dimensionless Fit Measure for Phylogenetic Distance Trees (2005) (6)
- New genome assembly of the barn owl (Tyto alba alba) (2020) (6)
- Taxon sampling unequally affects individual nodes in a phylogenetic tree: consequences for model gene tree construction in SwissTree (2017) (5)
- Discovery of archaeal fusexins homologous to eukaryotic HAP2/GCS1 gamete fusion proteins (2022) (5)
- The Microbe browser for comparative genomics (2009) (5)
- Prioritising candidate genes causing QTL using hierarchical orthologous groups (2018) (5)
- VoIDext: Vocabulary and Patterns for Enhancing Interoperable Datasets with Virtual Links (2019) (4)
- Expanding the Orthologous Matrix (OMA) programmatic interfaces: REST API and the OmaDB packages for R and Python. (2019) (4)
- Assigning confidence scores to homoeologs using fuzzy logic (2019) (4)
- The OMA orthology database in 2015 (2015) (4)
- A hands-on introduction to querying evolutionary relationships across multiple data sources using SPARQL. (2019) (4)
- Editorial: Orthology and applications (2011) (4)
- The Quest for Orthologs orthology benchmark service in 2022 (2022) (3)
- Homoeolog Inference Methods Requiring Bidirectional Best Hits or Synteny Miss Many Pairs (2021) (3)
- Alignments with non-overlapping moves, inversions and tandem duplications in O(n4) time (2008) (3)
- Protein length distribution is remarkably consistent across Life (2021) (3)
- Archaeal origins of gamete fusion (2021) (3)
- Multifaceted quality assessment of gene repertoire annotation with OMArk (2022) (2)
- OMAmer: tree-driven and alignment-free protein assignment to subfamilies outperforms closest sequence approaches (2020) (2)
- Enhancing interoperable datasets with virtual links (2019) (2)
- Parallel and Scalable Precise Clustering for Homologous Protein Discovery (2019) (2)
- How Much Does GenoGuard Really "Guard"?: An Empirical Analysis of Long-Term Security for Genomic Data (2019) (2)
- Transient structural variations alter gene expression and quantitative traits in Schizosaccharomyces pombe. (2016) (2)
- Gene Duplication and Gain in the Trematode Atriophallophorus winterbourni Contributes to Adaptation to Parasitism (2021) (2)
- A Linear Time Solution to the Labeled Robinson–Foulds Distance Problem (2020) (2)
- Federating and querying heterogeneous and distributed Web APIs and triple stores (2022) (1)
- Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome (2017) (1)
- A putative origin of insect chemosensory receptors in the last common eukaryotic ancestor (2020) (1)
- ISMB/ECCB 2021 proceedings (2021) (1)
- Global regulatory architecture of human, mouse and rat tissue transcriptomes (2013) (1)
- Bio-SODA UX: enabling natural language question answering over knowledge graphs with user disambiguation (2022) (0)
- Parallel and Scalable Precise Clustering (2020) (0)
- Reconstructing protein interactions across time using phylogeny-aware graph neural networks (2022) (0)
- OMAMO: orthology-based alternative model organism selection (2022) (0)
- Assigning con fi dence scores to homoeologs using fuzzy logic (2019) (0)
- Automated filtering of multiple sequence alignment worsens phylogenetic inference (2017) (0)
- A hands-on introduction to querying evolutionary relationships across multiple data sources using SPARQL (2019) (0)
- Phylogenetics iHam & pyHam : visualizing and processing hierarchical orthologous groups (2018) (0)
- A Transcriptomic-Phyloge nomic Analysis of the Evolutionary Relationships of Flatworms Highlights (2015) (0)
- OMAMO: orthology-based alternative model organism selection (2022) (0)
- Read2Tree: scalable and accurate phylogenetic trees from raw reads (2022) (0)
- The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens (2019) (0)
- Chapter 5 Inferring Orthology and Paralogy (2019) (0)
- Preface of Proceedings of GNOME 2014 — Festschrift for Gaston Gonnet (2014) (0)
- Bio-SODA-A Question Answering System for Domain Knowledge Graphs (2020) (0)
- GOATOOLS: A Python library for Gene Ontology analyses (2018) (0)
- Inference of phylogenetic trees directly from raw sequencing reads using Read2Tree. (2023) (0)
- Identifying orthologs with OMA: A primer [version 1; peer review: 2 approved] (2021) (0)
- Post-modern function annotation (2014) (0)
- Researchassessment of alignments reveals neglected tree signal in gaps (2010) (0)
- Structural variant calling: the long and the short of it (2019) (0)
- OpenEBench scientific benchmarking (2019) (0)
- Author response: A putative origin of the insect chemosensory receptor superfamily in the last common eukaryotic ancestor (2020) (0)
- Control of PHYTOCHROME KINASE SUBSTRATE subcellular localization and biological activity by protein S-acylation (2022) (0)
- OMAMO: orthology-based model organism selection (2021) (0)
- How to build phylogenetic species trees with OMA. (2020) (0)
- Comparative genomics using pairwise evolutionary distances (2009) (0)
- ISMB 2022 proceedings (2022) (0)
- Matreex: compact and interactive visualisation of large gene families provides evidence for loss of intraflagellar transport in a myxozoan (2023) (0)
- Scientific Communities in OpenEBench (2020) (0)
- Comparative genomics reveals contraction in olfactory receptor genes in bats (2017) (0)
- Protein S-acylation controls the subcellular localization and biological activity of PHYTOCHROME KINASE SUBSTRATE. (2023) (0)
- Phylogenetic profiling in eukaryotes comes of age. (2023) (0)
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