Mats Nilsson

Mats Nilsson is professor of biochemistry/molecular diagnostics at Stockholm University and SciLifeLab, and has developed in situ RNA sequencing, which reveals spatial patterns of gene expression with single-cell resolution.

Mats Nilsson is also the Site Director for SciLifeLab in Stockholm.

Lab webpage: https://nilssonlab.org/people/mats-nilsson/


Key publications:

Floriddia EM, Lourenço T, Zhang S, van Bruggen D, Hilscher MM, Kukanja P, Gonçalves Dos Santos JP, Altınkök M, Yokota C, Llorens-Bobadilla E, Mulinyawe SB, Grãos M, Sun LO, Frisén J, Nilsson M, Castelo-Branco G. Distinct oligodendrocyte populations have spatial preference and different responses to spinal cord injury. (2020) Nature communications

Gyllborg D, Langseth CM, Qian X, Choi E, Salas SM, Hilscher MM, Lein ES, Nilsson M. Hybridization-based in situ sequencing (HybISS) for spatially resolved transcriptomics in human and mouse brain tissue. (2020) Nucleic acids research

Soares RRG, Varela JC, Neogi U, Ciftci S, Ashokkumar M, Pinto IF, Nilsson M, Madaboosi N, Russom A. Sub-attomole detection of HIV-1 using padlock probes and rolling circle amplification combined with microfluidic affinity chromatography. (2020) Biosensors & bioelectronics

Ciftci S, Cánovas R, Neumann F, Paulraj T, Nilsson M, Crespo GA, Madaboosi N. The sweet detection of rolling circle amplification: Glucose-based electrochemical genosensor for the detection of viral nucleic acid. (2020) Biosensors & bioelectronics

Asp M, Giacomello S, Larsson L, Wu C, Fürth D, Qian X, Wärdell E, Custodio J, Reimegård J, Salmén F, Österholm C, Ståhl PL, Sundström E, Åkesson E, Bergmann O, Bienko M, Månsson-Broberg A, Nilsson M, Sylvén C, Lundeberg J. A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart. (2019) Cell

Qian X, Harris KD, Hauling T, Nicoloutsopoulos D, Muñoz-Manchado AB, Skene N, Hjerling-Leffler J, Nilsson M. Probabilistic cell typing enables fine mapping of closely related cell types in situ. (2019) Nature methods

Wu D, Yan J, Shen X, Sun Y, Thulin M, Cai Y, Wik L, Shen Q, Oelrich J, Qian X, Dubois KL, Ronquist KG, Nilsson M, Landegren U, Kamali-Moghaddam M. Profiling surface proteins on individual exosomes using a proximity barcoding assay. (2019) Nature communications

Soldatov R, Kaucka M, Kastriti ME, Petersen J, Chontorotzea T, Englmaier L, Akkuratova N, Yang Y, Häring M, Dyachuk V, Bock C, Farlik M, Piacentino ML, Boismoreau F, Hilscher MM, Yokota C, Qian X, Nilsson M, Bronner ME, Croci L, Hsiao WY, Guertin DA, Brunet JF, Consalez GG, Ernfors P, Fried K, Kharchenko PV, Adameyko I. Spatiotemporal structure of cell fate decisions in murine neural crest. (2019) Science (New York, N.Y.)

Carow B, Hauling T, Qian X, Kramnik I, Nilsson M, Rottenberg ME. Spatial and temporal localization of immune transcripts defines hallmarks and diversity in the tuberculosis granuloma. (2019) Nature communications

Tiklová K, Björklund ÅK, Lahti L, Fiorenzano A, Nolbrant S, Gillberg L, Volakakis N, Yokota C, Hilscher MM, Hauling T, Holmström F, Joodmardi E, Nilsson M, Parmar M, Perlmann T. Single-cell RNA sequencing reveals midbrain dopamine neuron diversity emerging during mouse brain development. (2019) Nature communications

Soares RRG, Neumann F, Caneira CRF, Madaboosi N, Ciftci S, Hernández-Neuta I, Pinto IF, Santos DR, Chu V, Russom A, Conde JP, Nilsson M. Silica bead-based microfluidic device with integrated photodiodes for the rapid capture and detection of rolling circle amplification products in the femtomolar range. (2019) Biosensors & bioelectronics

Krzywkowski T, Kühnemund M, Wu D, Nilsson M. Limited reverse transcriptase activity of phi29 DNA polymerase. (2018) Nucleic acids research

Hernández-Neuta I, Pereiro I, Ahlford A, Ferraro D, Zhang Q, Viovy JL, Descroix S, Nilsson M. Microfluidic magnetic fluidized bed for DNA analysis in continuous flow mode. (2017) Biosensors & bioelectronics

Krzywkowski T, Nilsson M. Fidelity of RNA templated end-joining by chlorella virus DNA ligase and a novel iLock assay with improved direct RNA detection accuracy. (2017) Nucleic acids research

Schütte M, Risch T, Abdavi-Azar N, Boehnke K, Schumacher D, Keil M, Yildiriman R, Jandrasits C, Borodina T, Amstislavskiy V, Worth CL, Schweiger C, Liebs S, Lange M, Warnatz HJ, Butcher LM, Barrett JE, Sultan M, Wierling C, Golob-Schwarzl N, Lax S, Uranitsch S, Becker M, Welte Y, Regan JL, Silvestrov M, Kehler I, Fusi A, Kessler T, Herwig R, Landegren U, Wienke D, Nilsson M, Velasco JA, Garin-Chesa P, Reinhard C, Beck S, Schäfer R, Regenbrecht CR, Henderson D, Lange B, Haybaeck J, Keilholz U, Hoffmann J, Lehrach H, Yaspo ML. Molecular dissection of colorectal cancer in pre-clinical models identifies biomarkers predicting sensitivity to EGFR inhibitors. (2017) Nature communications

Kühnemund M, Wei Q, Darai E, Wang Y, Hernández-Neuta I, Yang Z, Tseng D, Ahlford A, Mathot L, Sjöblom T, Ozcan A, Nilsson M. Targeted DNA sequencing and in situ mutation analysis using mobile phone microscopy. (2017) Nature communications

Kühnemund M, Hernández-Neuta I, Sharif MI, Cornaglia M, Gijs MAM, Nilsson M. Sensitive and inexpensive digital DNA analysis by microfluidic enrichment of rolling circle amplified single-molecules. (2017) Nucleic acids research

Geny S, Moreno PM, Krzywkowski T, Gissberg O, Andersen NK, Isse AJ, El-Madani AM, Lou C, Pabon YV, Anderson BA, Zaghloul EM, Zain R, Hrdlicka PJ, Jørgensen PT, Nilsson M, Lundin KE, Pedersen EB, Wengel J, Smith CI. Next-generation bis-locked nucleic acids with stacking linker and 2′-glycylamino-LNA show enhanced DNA invasion into supercoiled duplexes. (2016) Nucleic acids research

Mignardi M, Mezger A, Qian X, La Fleur L, Botling J, Larsson C, Nilsson M. Oligonucleotide gap-fill ligation for mutation detection and sequencing in situ. (2015) Nucleic acids research

Mezger A, Fock J, Antunes P, Østerberg FW, Boisen A, Nilsson M, Hansen MF, Ahlford A, Donolato M. Scalable DNA-Based Magnetic Nanoparticle Agglutination Assay for Bacterial Detection in Patient Samples. (2015) ACS nano

Mignardi M, Nilsson M. Fourth-generation sequencing in the cell and the clinic. (2014) Genome medicine

Østerberg FW, Rizzi G, Donolato M, Bejhed RS, Mezger A, Strömberg M, Nilsson M, Strømme M, Svedlindh P, Hansen MF. On-chip detection of rolling circle amplified DNA molecules from Bacillus globigii spores and Vibrio cholerae. (2014) Small (Weinheim an der Bergstrasse, Germany)

Russell C, Welch K, Jarvius J, Cai Y, Brucas R, Nikolajeff F, Svedlindh P, Nilsson M. Gold nanowire based electrical DNA detection using rolling circle amplification. (2014) ACS nano

Ke R, Mignardi M, Pacureanu A, Svedlund J, Botling J, Wählby C, Nilsson M. In situ sequencing for RNA analysis in preserved tissue and cells. (2013) Nature methods

Weibrecht I, Lundin E, Kiflemariam S, Mignardi M, Grundberg I, Larsson C, Koos B, Nilsson M, Söderberg O. In situ detection of individual mRNA molecules and protein complexes or post-translational modifications using padlock probes combined with the in situ proximity ligation assay. (2013) Nature protocols

Gómez de la Torre TZ, Ke R, Mezger A, Svedlindh P, Strømme M, Nilsson M. Sensitive detection of spores using volume-amplified magnetic nanobeads. (2012) Small (Weinheim an der Bergstrasse, Germany)

de la Torre TZ, Mezger A, Herthnek D, Johansson C, Svedlindh P, Nilsson M, Strømme M. Detection of rolling circle amplified DNA molecules using probe-tagged magnetic nanobeads in a portable AC susceptometer. (2011) Biosensors & bioelectronics

Johansson H, Isaksson M, Sörqvist EF, Roos F, Stenberg J, Sjöblom T, Botling J, Micke P, Edlund K, Fredriksson S, Kultima HG, Ericsson O, Nilsson M. Targeted resequencing of candidate genes using selector probes. (2010) Nucleic acids research

Conze T, Göransson J, Razzaghian HR, Ericsson O, Oberg D, Akusjärvi G, Landegren U, Nilsson M. Single molecule analysis of combinatorial splicing. (2010) Nucleic acids research

Larsson C, Grundberg I, Söderberg O, Nilsson M. In situ detection and genotyping of individual mRNA molecules. (2010) Nature methods

Howell WM, Grundberg I, Faryna M, Landegren U, Nilsson M. Glycosylases and AP-cleaving enzymes as a general tool for probe-directed cleavage of ssDNA targets. (2010) Nucleic acids research