Our Members – Henriksson Lab

Johan Henriksson (Group leader, associate professor)

Computational jack of all trades, with a recent love for the pipette.

Got an MSc in mechanical engineering from Chalmers, aimed at taking over family business, but the studies derailed. Ended up getting degrees in mathematics and computer science, among other, in addition. Somewhat randomly ended up with a hobby project on speciation and realized biology was the place to be if you are computational. Did a PhD working on microscopy for C.elegans at the Karolinska Institut. Realized this wasn’t the most efficient approach and went to learn single-cell RNA-seq at the Sanger Institute as a postdoc. Decided it was time to also do wet lab work. Was working on single-cell methodology but got stuck on a CRISPR-related project; this became the new speciality, with a focus on T cells. Still didn’t have enough of the academic experience and decided T cells would be a good model system of choice to go back and do regulatory modelling – full circle back to the speciation project, just completely different equations!

On the spare-time, only have the hobby of collecting hobbies (including now for example dancing, sawing, cooking, playing guitar and other typically Swedish macho male pastimes). General provider of banter, irony and dad humour.

ORCID 0000-0002-7745-2844, Github account

Current core lab members

Iryna Yakovenko (Postdoc)
Jyoti Verma (Postdoc, shared with Laura Carroll and Nicklas Strömberg)
Joram Kiriga Waititu (Postdoc, shared with Kemal Avican)
Sebastian Mihai (PhD student)

Current students / Internships:

2024 – Iza Norlund; bachelor thesis on computationally evaluating a new single-cell chemistry

Past students / Internships:

2023 – Agata Jasna; master thesis on high-throughput bacteria genome sequencing
2023 – Sarang Chafle; intership on T cells
2023 – Henrietta Hellberg; master thesis on NLP
2023 – Ebba Hellberg; master thesis on NLP
2022 – Hien Minh To; master thesis on CRISPR screening
2022 – Mara Blanco Arauzo; master thesis on CRISPR screening
2022 – Jan Hoffman; master thesis on CRISPR screening methods development
2022 – Iqra Nazir; master thesis on padlock probes for CRISPR screening
2022 – Angele Ahebla; master thesis on polycomb regulation of T cell activation
2022 – Linnea Borg; project work on padlock probes for CRISPR screening
2022 – Iqra Nazir; master thesis on padlock probes for CRISPR screening
2022 – Willem de Chateau; master thesis on how well the T cell transcriptome correspond chromatin accessibility
2022 – Oliwia Mruk; project work on hypoxia
2022 – Sarah Narrowe Danielsson; master thesis on VAEs
2022 – Filippe Seiz De Filippi; master thesis on mutiomic data integration
2022 – Arek Sahal; master thesis on mutiomic data integration
2022 – Enzo Giacopino; master thesis on CRISPR screening methods development
2021 – Kristina Krank; internship on CRISPR screening methods development
2021 – Hayoung Lee; master thesis on CRISPR screening methods development
2021 – William Rosenbaum; mixed wet-dry lab master thesis on microRNA regulation of CD4+ T cells
2021 – Nagham Saleh; master thesis in single-cell analysis
2021 – Annica Pedersen; single-cell internship through Forskaraspiranterna
2021 – Eleonora Hedin; single-cell internship
2021 – Illia Simutin; single-cell internship
2021 – Johan Lehto, Mathias Jonsson, Agata Jasna, Tiam Fitoon, Johan Lundberg & Elsa Renström – DBT2021 project students; automating SPRI cleaning on the OT2-robot
2021 – Anna Münch; rotation project on single-cell analysis and advanced CRISPR screening
2021 – Jonathan Persson; thesis project on machine learning
2021 – Laura Plutowski; rotation project on single-cell analysis
2021 – Mattias Wassbjer; thesis project on machine learning. Prediction of RNA levels given gene sequence
2021 – Fanny Gustavsson; summer course on padlock probes / isothermal amplification
2021 – Yanka Rabelo; thesis project on lentivirus production for gene perturbation
2021 – Lisabeth Emilius; thesis project on ATAC-seq wet lab implementation and analysis
2020 – Zinzou Maëva; Single-cell analysis, CellPhoneDB
2020 – Hanna Olsson, Leonardo Monrroy Perez, Rasmus Burge & Yanka Rabelo – DBT2019 project students; predicting RNA binding protein activity from RNA-seq data.

Alumni core lab members:

Martin Selinger (Postdoc)
Debojyoti Das (Postdoc)
Luisa F. Corredor-Arias (Postdoc)
Sarah Narrowe Danielsson (Computational project assistant)
Nicolò Lazzaro (Computational project assistant)
Anton Björk (Computational project assistant)