Profile

Affiliate Group Leader.
Understanding biology by developing new technology. Dancer and tinkerer.
Publications
Jafari, Shadi; Henriksson, Johan; Yan, Hua; Alenius, Mattias
Stress and odorant receptor feedback during a critical period after hatching regulates olfactory sensory neuron differentiation in Drosophila Journal Article
In: PLOS Biology, vol. 19, no. 4, pp. e3001101, 2021.
@article{Jafari_2021,
title = {Stress and odorant receptor feedback during a critical period after hatching regulates olfactory sensory neuron differentiation in Drosophila},
author = {Shadi Jafari and Johan Henriksson and Hua Yan and Mattias Alenius},
editor = {Bassem A. Hassan},
url = {https://doi.org/10.1371%2Fjournal.pbio.3001101},
doi = {10.1371/journal.pbio.3001101},
year = {2021},
date = {2021-04-01},
journal = {PLOS Biology},
volume = {19},
number = {4},
pages = {e3001101},
publisher = {Public Library of Science (PLoS)},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Mihai, Ionut Sebastian; Das, Debojyoti; Maršalkaite, Gabija; Henriksson, Johan
Meta-Analysis of Gene Popularity: Less Than Half of Gene Citations Stem from Gene Regulatory Networks Journal Article
In: Genes, vol. 12, no. 2, pp. 319, 2021.
@article{Mihai_2021,
title = {Meta-Analysis of Gene Popularity: Less Than Half of Gene Citations Stem from Gene Regulatory Networks},
author = {Ionut Sebastian Mihai and Debojyoti Das and Gabija Maršalkaite and Johan Henriksson},
url = {https://doi.org/10.3390%2Fgenes12020319},
doi = {10.3390/genes12020319},
year = {2021},
date = {2021-02-01},
journal = {Genes},
volume = {12},
number = {2},
pages = {319},
publisher = {MDPI AG},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, Johan; Haim-Vilmovsky, Liora; Mueller, Scott N.; Henriksson, Johan; Walker, Jennifer A.; Miao, Zhichao; Natan, Eviatar; Kar, Gozde; Clare, Simon; Barlow, Jillian L.; Charidemou, Evelina; Mamanova, Lira; Chen, Xi; Proserpio, Valentina; Pramanik, Jhuma; Woodhouse, Steven; Protasio, Anna V.; Efremova, Mirjana; Griffin, Julian L.; Berriman, Matt; Dougan, Gordon; Fisher, Jasmin; Marioni, John C.; McKenzie, Andrew N. J.; Teichmann, Sarah A.
Mapping Rora expression in resting and activated CD4+ T cells Journal Article
In: PLOS ONE, 2021.
@article{Johan_Henriksson_94038920,
title = {Mapping Rora expression in resting and activated CD4+ T cells},
author = {Johan Henriksson and Liora Haim-Vilmovsky and Scott N. Mueller and Johan Henriksson and Jennifer A. Walker and Zhichao Miao and Eviatar Natan and Gozde Kar and Simon Clare and Jillian L. Barlow and Evelina Charidemou and Lira Mamanova and Xi Chen and Valentina Proserpio and Jhuma Pramanik and Steven Woodhouse and Anna V. Protasio and Mirjana Efremova and Julian L. Griffin and Matt Berriman and Gordon Dougan and Jasmin Fisher and John C. Marioni and Andrew N. J. McKenzie and Sarah A. Teichmann},
url = {http://doi.org/10.1371/journal.pone.0251233},
doi = {10.1371/journal.pone.0251233},
year = {2021},
date = {2021-01-01},
journal = {PLOS ONE},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Jafari, Shadi; Henriksson, Johan; Yan, Hua; Alenius, Mattias
Activity and stress during a critical period regulate olfactory sensory neuron differentiation Journal Article
In: 2021.
@article{Jafari_2021b,
title = {Activity and stress during a critical period regulate olfactory sensory neuron differentiation},
author = {Shadi Jafari and Johan Henriksson and Hua Yan and Mattias Alenius},
url = {https://doi.org/10.1101%2F2021.01.13.426514},
doi = {10.1101/2021.01.13.426514},
year = {2021},
date = {2021-01-01},
publisher = {Cold Spring Harbor Laboratory},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Liora, Vilmovsky; Walker, Jennifer A; Henriksson, Johan; Miao, Zhichao; Natan, Eviatar; Kar, Gozde; Clare, Simon; Barlow, Jillian L; Charidemou, Evelina; Mamanova, Lira; Chen, Xi; Proserpio, Valentina; Pramanik, Jhuma; Woodhouse, Steven; Protasio, Anna V; Efremova, Mirjana; Griffin, Julian; Berriman, Matt; Dougan, Gordon; Fisher, Jasmin; Marioni, John C; McKenzie, Andrew NJ; Teichmann, Sarah A
Rora regulates activated T helper cells during inflammation Journal Article
In: 2019.
@article{Liora_2019,
title = {Rora regulates activated T helper cells during inflammation},
author = {Vilmovsky Liora and Jennifer A Walker and Johan Henriksson and Zhichao Miao and Eviatar Natan and Gozde Kar and Simon Clare and Jillian L Barlow and Evelina Charidemou and Lira Mamanova and Xi Chen and Valentina Proserpio and Jhuma Pramanik and Steven Woodhouse and Anna V Protasio and Mirjana Efremova and Julian Griffin and Matt Berriman and Gordon Dougan and Jasmin Fisher and John C Marioni and Andrew NJ McKenzie and Sarah A Teichmann},
url = {https://doi.org/10.1101%2F709998},
doi = {10.1101/709998},
year = {2019},
date = {2019-07-01},
publisher = {Cold Spring Harbor Laboratory},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, Johan; Chen, Xi; Gomes, Tomás; Ullah, Ubaid; Meyer, Kerstin B.; Miragaia, Ricardo; Duddy, Graham; Pramanik, Jhuma; Yusa, Kosuke; Lahesmaa, Riitta; Teichmann, Sarah A.
Genome-wide CRISPR Screens in T Helper Cells Reveal Pervasive Crosstalk between Activation and Differentiation Journal Article
In: Cell, vol. 176, no. 4, pp. 882–896.e18, 2019.
@article{Henriksson_2019,
title = {Genome-wide CRISPR Screens in T Helper Cells Reveal Pervasive Crosstalk between Activation and Differentiation},
author = {Johan Henriksson and Xi Chen and Tomás Gomes and Ubaid Ullah and Kerstin B. Meyer and Ricardo Miragaia and Graham Duddy and Jhuma Pramanik and Kosuke Yusa and Riitta Lahesmaa and Sarah A. Teichmann},
url = {https://doi.org/10.1016%2Fj.cell.2018.11.044},
doi = {10.1016/j.cell.2018.11.044},
year = {2019},
date = {2019-02-01},
journal = {Cell},
volume = {176},
number = {4},
pages = {882--896.e18},
publisher = {Elsevier BV},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, Johan; Filcek, Kimberly; Myers, Garry; Vielfort, Katarina; Muraleedharan, Samada; Henriksson, Johan; Valdivia, Raphael H.; Bavoil, Patrik M.; Sixt, Barbara S.
Insertional mutagenesis in the zoonotic pathogen Chlamydia caviae Journal Article
In: PLOS ONE, 2019.
@article{Johan_Henriksson_64262065,
title = {Insertional mutagenesis in the zoonotic pathogen Chlamydia caviae},
author = {Johan Henriksson and Kimberly Filcek and Garry Myers and Katarina Vielfort and Samada Muraleedharan and Johan Henriksson and Raphael H. Valdivia and Patrik M. Bavoil and Barbara S. Sixt},
url = {http://doi.org/10.1371/journal.pone.0224324},
doi = {10.1371/journal.pone.0224324},
year = {2019},
date = {2019-01-01},
journal = {PLOS ONE},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pramanik, Jhuma; Chen, Xi; Kar, Gozde; Henriksson, Johan; Gomes, Tomás; Park, Jong-Eun; Natarajan, Kedar; Meyer, Kerstin B.; Miao, Zhichao; McKenzie, Andrew N. J.; Mahata, Bidesh; Teichmann, Sarah A.
In: Genome Medicine, vol. 10, no. 1, 2018.
@article{Pramanik_2018,
title = {Genome-wide analyses reveal the IRE1a-XBP1 pathway promotes T helper cell differentiation by resolving secretory stress and accelerating proliferation},
author = {Jhuma Pramanik and Xi Chen and Gozde Kar and Johan Henriksson and Tomás Gomes and Jong-Eun Park and Kedar Natarajan and Kerstin B. Meyer and Zhichao Miao and Andrew N. J. McKenzie and Bidesh Mahata and Sarah A. Teichmann},
url = {https://doi.org/10.1186%2Fs13073-018-0589-3},
doi = {10.1186/s13073-018-0589-3},
year = {2018},
date = {2018-10-01},
journal = {Genome Medicine},
volume = {10},
number = {1},
publisher = {Springer Nature America, Inc},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Miragaia, Ricardo J.; Zhang, Xiuwei; Gomes, Tomás; Svensson, Valentine; Ilicic, Tomislav; Henriksson, Johan; Kar, Gozde; Lönnberg, Tapio
Single-cell RNA-sequencing resolves self-antigen expression during mTEC development Journal Article
In: Scientific Reports, vol. 8, no. 1, 2018.
@article{Miragaia_2018,
title = {Single-cell RNA-sequencing resolves self-antigen expression during mTEC development},
author = {Ricardo J. Miragaia and Xiuwei Zhang and Tomás Gomes and Valentine Svensson and Tomislav Ilicic and Johan Henriksson and Gozde Kar and Tapio Lönnberg},
url = {https://doi.org/10.1038%2Fs41598-017-19100-4},
doi = {10.1038/s41598-017-19100-4},
year = {2018},
date = {2018-01-01},
journal = {Scientific Reports},
volume = {8},
number = {1},
publisher = {Springer Nature},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
MS, Severo; JJM, Landry; RL, Lindquist; C, Goosmann; V, Brinkmann; P, Collier; AE, Hauser; V, Benes; J, Henriksson; SA, Teichmann; EA, Levashina
Unbiased classification of mosquito blood cells by single-cell genomics and high-content imaging. Journal Article
In: Proceedings of the National Academy of Sciences of the United States of America, 2018.
@article{PMID:30038005,
title = {Unbiased classification of mosquito blood cells by single-cell genomics and high-content imaging.},
author = {Severo MS and Landry JJM and Lindquist RL and Goosmann C and Brinkmann V and Collier P and Hauser AE and Benes V and Henriksson J and Teichmann SA and Levashina EA},
doi = {10.1073/pnas.1803062115},
year = {2018},
date = {2018-01-01},
journal = {Proceedings of the National Academy of Sciences of the United States of America},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
G, Arvidsson; J, Henriksson; B, Sander; AP, Wright
In: Haematologica, 2018.
@article{PMID:29449436,
title = {Mixed-species RNAseq analysis of human lymphoma cells adhering to mouse stromal cells identifies a core gene set that is also differentially expressed in the lymph node microenvironment of mantle cell lymphoma and chronic lymphocytic leukemia patients.},
author = {Arvidsson G and Henriksson J and Sander B and Wright AP},
doi = {10.3324/haematol.2017.182048},
year = {2018},
date = {2018-01-01},
journal = {Haematologica},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Bürglin, Thomas R.; Henriksson, Johan
FACSanadu: Graphical user interface for rapid visualization and quantification of flow cytometry data Journal Article
In: 2017.
@article{B_rglin_2017,
title = {FACSanadu: Graphical user interface for rapid visualization and quantification of flow cytometry data},
author = {Thomas R. Bürglin and Johan Henriksson},
url = {https://doi.org/10.1101%2F201897},
doi = {10.1101/201897},
year = {2017},
date = {2017-10-01},
publisher = {Cold Spring Harbor Laboratory},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, Johan; Chen, Xi; Gomes, Tomás; Miragaia, Ricardo; Ullah, Ubaid; Pramanik, Jhuma; Meyer, Kerstin; Yusa, Kosuke; Lahesmaa, Riita; Teichmann, Sarah A.
An unbiased reconstruction of the T helper cell type 2 differentiation network Journal Article
In: bioRxiv, 2017.
@article{Henriksson196022,
title = {An unbiased reconstruction of the T helper cell type 2 differentiation network},
author = {Johan Henriksson and Xi Chen and Tomás Gomes and Ricardo Miragaia and Ubaid Ullah and Jhuma Pramanik and Kerstin Meyer and Kosuke Yusa and Riita Lahesmaa and Sarah A. Teichmann},
url = {https://www.biorxiv.org/content/early/2017/10/04/196022},
doi = {10.1101/196022},
year = {2017},
date = {2017-01-01},
journal = {bioRxiv},
publisher = {Cold Spring Harbor Laboratory},
abstract = {T helper type 2 (Th2) cells are important regulators of our adaptive immune response, particularly the response against parasites, and have relevance for auto-immunity as well as tumour progression. This classic T helper type has been studied intensively, but not systematically. Using newly developed, genome-wide retroviral CRISPR knock-out (KO) technology, combined with RNA-seq, ATAC-seq and ChIP-seq, we have dissected the regulatory circuitry governing differentiation in these cells. During Th2 activation/differentiation approximately 4000 genes are perturbed, with at least 200 genes specifically associated with the Th2 program in mouse and human. We confirm previously known Th2 driver genes and have discovered several novel genes, including transcription factors, metabolic genes and potential receptors/cytokines, critical for Th2 function. Our study provides an atlas for, but not limited to, the Th2 regulatory network, pinpointing the key players of Th2 differentiation.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, Johan
E-MTAB-6285 - RNA sequencing of T helper cell type 2, with CRISPR KO Miscellaneous
2017.
@misc{Johan_Henriksson_40114700,
title = {E-MTAB-6285 - RNA sequencing of T helper cell type 2, with CRISPR KO},
author = {Johan Henriksson},
year = {2017},
date = {2017-01-01},
keywords = {},
pubstate = {published},
tppubtype = {misc}
}
Henriksson, Johan
E-MTAB-6300 - RNA-seq time course analysis of human and mouse T helper type 2 and type 0 cells Miscellaneous
2017.
@misc{Johan_Henriksson_40114701,
title = {E-MTAB-6300 - RNA-seq time course analysis of human and mouse T helper type 2 and type 0 cells},
author = {Johan Henriksson},
year = {2017},
date = {2017-01-01},
keywords = {},
pubstate = {published},
tppubtype = {misc}
}
J, Hench; J, Henriksson; AM, Abou-Zied; M, Lüppert; J, Dethlefsen; K, Mukherjee; YG, Tong; L, Tang; U, Gangishetti; DL, Baillie; TR, Bürglin
The Homeobox Genes of Caenorhabditis elegans and Insights into Their Spatio-Temporal Expression Dynamics during Embryogenesis. Journal Article
In: PloS one, 2015.
@article{PMID:26024448,
title = {The Homeobox Genes of Caenorhabditis elegans and Insights into Their Spatio-Temporal Expression Dynamics during Embryogenesis.},
author = {Hench J and Henriksson J and Abou-Zied AM and Lüppert M and Dethlefsen J and Mukherjee K and Tong YG and Tang L and Gangishetti U and Baillie DL and Bürglin TR},
doi = {10.1371/journal.pone.0126947},
year = {2015},
date = {2015-01-01},
journal = {PloS one},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Arczewska, K. D.; Tomazella, G. G.; Lindvall, J. M.; Kassahun, H.; Maglioni, S.; Torgovnick, A.; Henriksson, J.; Matilainen, O.; Marquis, B. J.; Nelson, B. C.; Jaruga, P.; Babaie, E.; Holmberg, C. I.; Bürglin, T. R.; Ventura, N.; Thiede, B.; Nilsen, H.
Active transcriptomic and proteomic reprogramming in the C. elegans nucleotide excision repair mutant xpa-1 Journal Article
In: Nucleic Acids Research, vol. 41, no. 10, pp. 5368-5381, 2013.
@article{henriksson2013,
title = {Active transcriptomic and proteomic reprogramming in the C. elegans nucleotide excision repair mutant xpa-1},
author = {K. D. Arczewska and G. G. Tomazella and J. M. Lindvall and H. Kassahun and S. Maglioni and A. Torgovnick and J. Henriksson and O. Matilainen and B. J. Marquis and B. C. Nelson and P. Jaruga and E. Babaie and C. I. Holmberg and T. R. Bürglin and N. Ventura and B. Thiede and H. Nilsen},
year = {2013},
date = {2013-01-01},
journal = {Nucleic Acids Research},
volume = {41},
number = {10},
pages = {5368-5381},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Xue-Franzén, Y.; Henriksson, J.; Bürglin, T. R.; Wright, A. P. H.
Distinct roles of the Gcn5 histone acetyltransferase revealed during transient stress-induced reprogramming of the genome Journal Article
In: BMC Genomics, vol. 14, no. 1, 2013.
@article{henriksson2013b,
title = {Distinct roles of the Gcn5 histone acetyltransferase revealed during transient stress-induced reprogramming of the genome},
author = {Y. Xue-Franzén and J. Henriksson and T. R. Bürglin and A. P. H. Wright},
year = {2013},
date = {2013-01-01},
journal = {BMC Genomics},
volume = {14},
number = {1},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, J.; Hench, J.; Tong, Y. G.; Johansson, A.; Johansson, D.; Bürglin, T. R.
Endrov: an integrated platform for image analysis. Journal Article
In: Nature methods, vol. 10, no. 6, pp. 454-456, 2013.
@article{henriksson2013c,
title = {Endrov: an integrated platform for image analysis.},
author = {J. Henriksson and J. Hench and Y. G. Tong and A. Johansson and D. Johansson and T. R. Bürglin},
year = {2013},
date = {2013-01-01},
journal = {Nature methods},
volume = {10},
number = {6},
pages = {454-456},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, J.; Piasecki, B. P.; Lend, K.; Bürglin, T. R.; Swoboda, P.
Finding ciliary genes: A computational approach Journal Article
In: Methods in Enzymology, vol. 525, pp. 327-350, 2013.
@article{henriksson2013d,
title = {Finding ciliary genes: A computational approach},
author = {J. Henriksson and B. P. Piasecki and K. Lend and T. R. Bürglin and P. Swoboda},
year = {2013},
date = {2013-01-01},
journal = {Methods in Enzymology},
volume = {525},
pages = {327-350},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, Johan
A model of sympatric speciation through reinforcement Journal Article
In: 2010.
@article{Johan_Henriksson_5331330,
title = {A model of sympatric speciation through reinforcement},
author = {Johan Henriksson},
url = {http://doi.org/10.3934/krm.2010.3.143},
doi = {10.3934/krm.2010.3.143},
year = {2010},
date = {2010-01-01},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Xue-Franzén, Y.; Johnsson, A.; Brodin, D.; Henriksson, J.; Bürglin, T. R.; Wright, A. P. H.
Genome-wide characterisation of the Gcn5 histone acetyltransferase in budding yeast during stress adaptation reveals evolutionarily conserved and diverged roles Journal Article
In: BMC Genomics, vol. 11, no. 1, 2010.
@article{henriksson2010,
title = {Genome-wide characterisation of the Gcn5 histone acetyltransferase in budding yeast during stress adaptation reveals evolutionarily conserved and diverged roles},
author = {Y. Xue-Franzén and A. Johnsson and D. Brodin and J. Henriksson and T. R. Bürglin and A. P. H. Wright},
year = {2010},
date = {2010-01-01},
journal = {BMC Genomics},
volume = {11},
number = {1},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Henriksson, Bernt Wennberg Torbjörn Lundh Johan
A model of sympatric speciation through reinforcement Journal Article
In: Kinetic & Related Models, vol. 3, no. 1, pp. 143-163, 2010.
@article{1937-5093_2010_1_143,
title = {A model of sympatric speciation through reinforcement},
author = {Bernt Wennberg Torbjörn Lundh Johan Henriksson},
year = {2010},
date = {2010-01-01},
journal = {Kinetic & Related Models},
volume = {3},
number = {1},
pages = {143-163},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Bratic, I.; Hench, J.; Henriksson, J.; Antebi, A.; Bürglin, T. R.; Trifunovic, A.
Mitochondrial DNA level, but not active replicase, is essential for Caenorhabditis elegans development Journal Article
In: Nucleic Acids Research, vol. 37, no. 6, pp. 1817-1828, 2009.
@article{henriksson2009,
title = {Mitochondrial DNA level, but not active replicase, is essential for Caenorhabditis elegans development},
author = {I. Bratic and J. Hench and J. Henriksson and A. Antebi and T. R. Bürglin and A. Trifunovic},
year = {2009},
date = {2009-01-01},
journal = {Nucleic Acids Research},
volume = {37},
number = {6},
pages = {1817-1828},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Hench, J.; Henriksson, J.; Lüppert, M.; Bürglin, T. R.
Spatio-temporal reference model of Caenorhabditis elegans embryogenesis with cell contact maps Journal Article
In: Developmental Biology, vol. 333, no. 1, pp. 1-13, 2009.
@article{henriksson2009b,
title = {Spatio-temporal reference model of Caenorhabditis elegans embryogenesis with cell contact maps},
author = {J. Hench and J. Henriksson and M. Lüppert and T. R. Bürglin},
year = {2009},
date = {2009-01-01},
journal = {Developmental Biology},
volume = {333},
number = {1},
pages = {1-13},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
J, Pramanik; X, Chen; G, Kar; T, Gomes; J, Henriksson; Z, Miao; K, Natarajan; ANJ, McKenzie; B, Mahata; SA, Teichmann
The IRE1a-XBP1 pathway promotes T helper cell differentiation by resolving secretory stress and accelerating proliferation Journal Article
In: 0000.
@article{PPR:PPR21261,
title = {The IRE1a-XBP1 pathway promotes T helper cell differentiation by resolving secretory stress and accelerating proliferation},
author = {Pramanik J and Chen X and Kar G and Gomes T and Henriksson J and Miao Z and Natarajan K and McKenzie ANJ and Mahata B and Teichmann SA},
doi = {10.1101/235010},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
MS, Severo; JJ, Landry; RL, Lindquist; C, Goosmann; V, Brinkmann; P, Collier; AE, Hauser; V, Benes; J, Henriksson; SA, Teichmann; EA, Levashina
Unbiased classification of mosquito blood cells by single-cell genomics and high-content imaging Journal Article
In: 0000.
@article{PPR:PPR21048,
title = {Unbiased classification of mosquito blood cells by single-cell genomics and high-content imaging},
author = {Severo MS and Landry JJ and Lindquist RL and Goosmann C and Brinkmann V and Collier P and Hauser AE and Benes V and Henriksson J and Teichmann SA and Levashina EA},
doi = {10.1101/234492},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Johan Henriksson’s research focuses on developing methods such that we can understand gene regulation. This involves a wide take on the topic, including research on the word “understanding” itself.
Johan was born in Dalarna, Sweden, with two parents both running their own companies. He taught himself programming and linear algebra to be able to write games, and spent too much of his childhood on IRC. Later at university he pursued mechanical engineering at Chalmers university to be able to take over the family business. This however derailed into getting a degree in mathematics, taking all the courses in computer science, and running a nuclear reactor in japan while at it. Ironically, after avoiding all courses in biology, he did a PhD studying transcription factors at Karolinska Institutet, developing image analysis tools. However, too impatient for generating enough data using microscopy, he then followed up with a postdoc at the Wellcome Sanger institute, Cambridge, funded by Vetenskapsrådet. There he taught himself how to pipette and developed the first retroviral CRISPR library, and got into single-cell technology.
In 2019, Johan was recruited as a group leader to MIMS, the Nordic EMBL partnership node hosted at Umeå. Having experienced that our cognitive ability and cultural biases are the primary limitations for “finishing” biology as a topic, he has gone back to his systems biology and engineering roots. His program consists of developing methods for massive and systematic data collection, and developing analysis methods that can make the most of the data. The latter includes machine learning and an epistemology based on optimally subjective Bayesian statistics. The primary application is on T cells for immunotherapy, with an autoethnographic twist.
Johan spends his free time mainly dancing and crafting, but otherwise only has one interest: collecting more interests.
Current Projects
Improving immunotherapy and CAR T cell resistance to the tumor microenvironment
Improving CRISPR screening methods
with Yuri Schwartz
Novel uses of multimodal single-cell data
with Mattias Forsell
Alternative formulations of Variational Autoencoders for single-cell analysis
with Tommy Lofstedt
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