Author

Martijn Rep

University of AmsterdamORCID 0000-0003-3608-6283Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Genomics· 2 Bioinformatics· 1 Plant Biology· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Approach:statistical model· 3 Research Focus:clustering· 2 Organism:fungi (other)· 2 Assay:whole-genome sequencing· 2 Assay:bulk RNA-seq· 1 Organism:chicken / avian· 1 Assay:ChIP-seq· 1 Approach:comparative / phylogenetic analysis· 1

Frequent Co-Authors

Like FokkensiD· 3 shared Michael F. SeidliD· 2 shared Adele Di MatteoiD· 1 shared Andrea DoddiiD· 1 shared Anouk C. van WesterhoveniD· 1 shared Antonio Valverde‐CorredoriD· 1 shared Baolong ZhangiD· 1 shared Bart P. H. J. ThommaiD· 1 shared

Activity by Year

2018-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

3 shared papersGenomics

Like FokkensORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

Plant BiologybioRxivPreprintFeb 13, 2026

A structurally unique effector shared between Verticillium dahliae and Fusarium oxysporum is involved in cotton defoliation and virulence on other hosts

Andrea Doddi, Gabriel L. Fiorin, Jinling…·Bart P. H. J. Thomma

DOI 10.64898/2026.02.12.705609

chicken / avianmouse

𝕏 PostBluesky

GenomicsNAR Genomics and BioinformaticsPeer-reviewedMar 29, 2025

Reference-free identification and pangenome analysis of accessory chromosomes in a major fungal plant pathogen

Anouk C. van Westerhoven, Like Fokkens, Kyran Wissink…·Michael F. Seidl

The paper constructs a pangenome variation graph for Fusarium oxysporum to study accessory chromosomes, identifying their variability and evolutionary dynamics.

10 citationstop 4%

fungi (other)statistical model

𝕏 PostBluesky

BioinformaticsFrontiers in Plant SciencePeer-reviewedOct 19, 2022

Fusarium oxysporum Effector Clustering version 2 (FoEC2): an updated pipeline to infer host range

Megan A. Brenes Guallar, Like Fokkens, Martijn Rep…·Peter van Dam

FoEC2 is an updated pipeline that classifies Fusarium oxysporum strains into formae speciales by clustering effector sequences from genome assemblies.

19 citations

whole-genome sequencingstatistical model

𝕏 PostBluesky

GenomicsbioRxivPreprintNov 7, 2018

✦ In-depth digest

The multi-speed genome of Fusarium oxysporum reveals association of histone modifications with sequence divergence and footprints of past horizontal chromosome transfer events

Like Fokkens, Shermineh Shahi, Lanelle Connolly…·Martijn Rep

Fusarium oxysporum chromosomes fall into four classes by divergence and dispensability; H3K27me3-marked regions diverge faster, and tomato pathogenicity regions show footprints of horizontal transfer.

68 citations

fungi (other)ChIP-seq

𝕏 PostBluesky