🏆 Finalist — NIH Data Sharing Index (“S-Index”) Challenge

Rayan Chikhi

Centre National de la Recherche Scientifique

ORCID: 0000-0003-1099-8735

Also affiliated with Institut Pasteur, Université Paris Cité, Department of Genomes & Genetics

Biochemistry, Genetics and Molecular BiologyComputer ScienceAgricultural and Biological Sciences

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 5%percentile
0.371Author DataRank

Indexed papers

4in pilot corpus
datarank_citation_only_1hop_v6· scope data_onlyMethodology
Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 4 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

Top data-sharing exemplar

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

Construction and representation of human pangenome graphs

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.02.542089
Top 48%
0.371DataRank
Top 48%4 citations

P Lechat, Yoann Dufresne, Rayan Chikhi, Francesco Andreace

Papers

Driven by 20 papers — median percentile 52. Top paper: “Space-efficient and exact de Bruijn graph representation based on a Bloom filter”.

Space-efficient and exact de Bruijn graph representation based on a Bloom filter

Algorithms for Molecular Biology(2013)10.1186/1748-7188-8-22
N/A
0.893DataRank · unranked
384 citations

Guillaume Rizk, Rayan Chikhi

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer

Cell Systems(2021)10.1016/j.cels.2021.08.009
N/A
0.727DataRank · unranked
126 citations

Bonnie Berger, Rayan Chikhi, Barış Ekim

Efficient and Robust Search of Microbial Genomes via Phylogenetic Compression

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.04.15.536996
N/A
0.416DataRank · unranked
15 citations

Leandro Lima, Simone Pignotti, Natalia Quinones-Olvera, Kamil Salikhov, Rayan Chikhi +4 more

Construction and representation of human pangenome graphs

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.02.542089
Top 48%
0.371DataRank
Top 48%4 citations

P Lechat, Yoann Dufresne, Rayan Chikhi, Francesco Andreace

Comparative genome analysis using sample-specific string detection in accurate long reads

Bioinformatics Advances(2021)10.1093/bioadv/vbab005
N/A
0.330DataRank · unranked
8 citations

Luca Denti, Paola Bonizzoni, Rayan Chikhi, Fereydoun Hormozdiari, Parsoa Khorsand

Reference-free Structural Variant Detection in Microbiomes via Long-read Coassembly Graphs

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.25.577285
N/A
0.241DataRank · unranked
4 citations

Feiqiao B. Yu, Summer E. Vance, Santiago Segarra, Devaki Bhaya, Rayan Chikhi +3 more

Comparative genome analysis using sample-specific string detection in accurate long reads

10.1101/2021.03.23.436571
N/A
0.104DataRank · unranked
1 citations

Luca Denti, Paola Bonizzoni, Rayan Chikhi, Fereydoun Hormozdiari, Parsoa Khorsand

Petascale Homology Search for Structure Prediction

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.10.548308
N/A
0DataRank · unranked
17 citations

Gyuri Kim, Eli Levy Karin, Milot Mirdita, Sukhwan Park, Rayan Chikhi +4 more

Data structures based on k -mers for querying large collections of sequencing data sets

Genome Research(2020)10.1101/gr.260604.119
N/A
0DataRank · unranked
122 citations

Christina Boucher, Simon J. Puglisi, Paul Medvedev, Mikaël Salson, Rayan Chikhi +1 more

High-quality metagenome assembly from long accurate reads with metaMDBG

Nature Biotechnology(2024)10.1038/s41587-023-01983-6
N/A
0DataRank · unranked
161 citations

Sébastien Raguideau, Robert James, Adam M. Phillippy, Rayan Chikhi, Christopher Quince +1 more

Reference-free structural variant detection in microbiomes via long-read co-assembly graphs

Bioinformatics(2024)10.1093/bioinformatics/btae224
N/A
0DataRank · unranked
6 citations

Feiqiao B. Yu, Summer E. Vance, Santiago Segarra, Devaki Bhaya, Rayan Chikhi +3 more

Analysis of metagenomic data

Nature Reviews Methods Primers(2025)10.1038/s43586-024-00376-6
N/A
0DataRank · unranked
62 citations

Judith Rodríguez, Viorel Munteanu, Cynthia Ronkowski, Nitesh Kumar Sharma, Mohammed Alser +35 more

Efficient and robust search of microbial genomes via phylogenetic compression

Nature Methods(2025)10.1038/s41592-025-02625-2
N/A
0DataRank · unranked
13 citations

Leandro Lima, Simone Pignotti, Natalia Quinones-Olvera, Kamil Salikhov, Rayan Chikhi +4 more

Efficient High-Quality Metagenome Assembly from Long Accurate Reads using Minimizer-space de Bruijn Graphs

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.07.548136
N/A
0DataRank · unranked
12 citations

Sébastien Raguideau, Robert James, Adam M. Phillippy, Rayan Chikhi, Christopher Quince +1 more

STRONG: metagenomics strain resolution on assembly graphs

Genome biology(2021)10.1186/s13059-021-02419-7
N/A
0DataRank · unranked
123 citations

Sergey Nurk, Sébastien Raguideau, Robert James, Orkun S. Soyer, J. Kimberley Summers +5 more

Data Structures to Represent a Set of k -long DNA Sequences

ACM Computing Surveys(2021)10.1145/3445967
N/A
0DataRank · unranked
42 citations

Jan Holub, Paul Medvedev, Rayan Chikhi

Minimizer-space de Bruijn graphs

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.06.09.447586
N/A
0DataRank · unranked
3 citations

Bonnie Berger, Rayan Chikhi, Barış Ekim

Disk compression of k-mer sets

Algorithms for Molecular Biology(2021)10.1186/s13015-021-00192-7
N/A
0DataRank · unranked
0 citations

Rayan Chikhi, Paul Medvedev, Amatur Rahman

mapquik: Efficient low-divergence mapping of long reads in minimizer space

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.23.521809
N/A
0DataRank · unranked
2 citations

Kristoffer Sahlin, Paul Medvedev, Bonnie Berger, Rayan Chikhi, Barış Ekim

Efficient mapping of accurate long reads in minimizer space with mapquik

Genome Research(2023)10.1101/gr.277679.123
N/A
0DataRank · unranked
17 citations

Kristoffer Sahlin, Paul Medvedev, Bonnie Berger, Rayan Chikhi, Barış Ekim