Jasmijn Baaijens
Jasmijn Baaijens, PhD
Research Fellow in Biomedical Informatics
Baym Lab
Mentor: Michael Baym, PhD

Jasmijn Baaijens is a research fellow in the Baym lab, working on computational methods to study and predict antibiotic resistance. Baaijens performed her PhD research at the Dutch institute for mathematics and computer science (CWI) and obtained her degree at Utrecht University, the Netherlands. Baaijens is interested in graph theory, algorithms and combinatorics, and applying techniques from these fields to solve biological problems. During her PhD she developed several methods for haplotype-aware genome assembly, which together enable accurate, full-length reconstruction of viral genomes within an infection. 

Lineage abundance estimation for SARS-CoV-2 in wastewater using transcriptome quantification techniques.
Authors: Baaijens JA, Zulli A, Ott IM, Nika I, van der Lugt MJ, Petrone ME, Alpert T, Fauver JR, Kalinich CC, Vogels CBF, Breban MI, Duvallet C, McElroy KA, Ghaeli N, Imakaev M, Mckenzie-Bennett MF, Robison K, Plocik A, Schilling R, Pierson M, Littlefield R, Spencer ML, Simen BB, Hanage WP, Grubaugh ND, Peccia J, Baym M.
Genome Biol
View full abstract on Pubmed
Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification.
Authors: Baaijens JA, Zulli A, Ott IM, Petrone ME, Alpert T, Fauver JR, Kalinich CC, Vogels CBF, Breban MI, Duvallet C, McElroy K, Ghaeli N, Imakaev M, Mckenzie-Bennett M, Robison K, Plocik A, Schilling R, Pierson M, Littlefield R, Spencer M, Simen BB, Hanage WP, Grubaugh ND, Peccia J, Baym M.
medRxiv
View full abstract on Pubmed
Eleven grand challenges in single-cell data science.
Authors: Lähnemann D, Köster J, Szczurek E, McCarthy DJ, Hicks SC, Robinson MD, Vallejos CA, Campbell KR, Beerenwinkel N, Mahfouz A, Pinello L, Skums P, Stamatakis A, Attolini CS, Aparicio S, Baaijens J, Balvert M, Barbanson B, Cappuccio A, Corleone G, Dutilh BE, Florescu M, Guryev V, Holmer R, Jahn K, Lobo TJ, Keizer EM, Khatri I, Kielbasa SM, Korbel JO, Kozlov AM, Kuo TH, Lelieveldt BPF, Mandoiu II, Marioni JC, Marschall T, Mölder F, Niknejad A, Raczkowski L, Reinders M, Ridder J, Saliba AE, Somarakis A, Stegle O, Theis FJ, Yang H, Zelikovsky A, McHardy AC, Raphael BJ, Shah SP, Schönhuth A.
Genome Biol
View full abstract on Pubmed