Sten Linnarsson

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Public outreach and news

Articles

Journal article: NATURE NEUROSCIENCE. 2024;27(12):2267-2268
Ernest Arenas (1962-2024)
Ernfors P; Castelo-Branco G; Uhlen P; Linnarsson S; Marklund U; Hjerling-Leffler J; Dagliyan O
Article: NATURE COMMUNICATIONS. 2024;15(1):9381
High-parametric protein maps reveal the spatial organization in early-developing human lung
Sariyar S; Sountoulidis A; Hansen JN; Salas SM; Mardamshina M; Casals AM; Navarro FB; Andrusivova Z; Li X; Czarnewski P; Lundeberg J; Linnarsson S; Nilsson M; Sundstrom E; Samakovlis C; Lundberg E; Ayoglu B
Article: CANCER CELL. 2024;42(9):1528-1548.e17
Article GABAergic neuronal lineage development determines clinically actionable targets in diffuse hemispheric glioma, H3G34-mutant
Liu I; Cruzeiro GAV; Bjerke L; Rogers RF; Grabovska Y; Beck A; Mackay A; Barron T; Hack OA; Quezada MA; Molinari V; Shaw ML; Perez-Somarriba M; Temelso S; Raynaud F; Ruddle R; Panditharatna E; Englinger B; Mire HM; Jiang L; Nascimento A; Labelle J; Haase R; Rozowsky J; Neyazi S; Baumgartner A-C; Castellani S; Hoffman SE; Cameron A; Morrow M; Nguyen Q-D; Pericoli G; Madlener S; Mayr L; Dorfer C; Geyeregger R; Rota C; Ricken G; Ligon KL; Alexandrescu S; Cartaxo RT; Lau B; Koschmann C; Braun E; Danan-Gotthold RM; Hu L; Siletti K; Sundstrom E; Hodge R; Lein E; Agnihotri S; Eisenstat DD; Stapleton S; King A; Bleil C; Mastronuzzi A; Cole KA; Waanders AJ; Carcaboso AM; Schuller U; Hargrave D; Vinci M; Carceller F; Haberler C; Slavc I; Linnarsson S; Gojo J; Monje M; Jones C; Filbin MG
Article: NATURE IMMUNOLOGY. 2024;25(6):1007-1019
Alternative platelet differentiation pathways initiated by nonhierarchically related hematopoietic stem cells
Carrelha J; Mazzi S; Winroth A; Hagemann-Jensen M; Ziegenhain C; Hogstrand K; Seki M; Brennan MS; Lehander M; Wu B; Meng Y; Markljung E; Norfo R; Ishida H; Stralin KB; Grasso F; Karali CS; Aliouat A; Hillen A; Chari E; Siletti K; Thongjuea S; Mead AJ; Linnarsson S; Nerlov C; Sandberg R; Yoshizato T; Woll PS; Jacobsen SEW
Article: NEURON. 2023;111(22):3590-3603.e5
Transcriptional maintenance of cortical somatostatin interneuron subtype identity during migration
Munguba H; Nikouei K; Hochgerner H; Oberst P; Kouznetsova A; Ryge J; Munoz-Manchado AB; Close J; Batista-Brito R; Linnarsson S; Hjerling-Leffler J
Article: SCIENCE. 2023;382(6667):eadf6812
Transcriptomic cytoarchitecture reveals principles of human neocortex organization
Jorstad NL; Close J; Johansen N; Yanny AM; Barkan ER; Travaglini KJ; Bertagnolli D; Campos J; Casper T; Crichton K; Dee N; Ding S-L; Gelfand E; Goldy J; Hirschstein D; Kiick K; Kroll M; Kunst M; Lathia K; Long B; Martin N; Mcmillen D; Pham T; Rimorin C; Ruiz A; Shapovalova N; Shehata S; Siletti K; Somasundaram S; Sulc J; Tieu M; Torkelson A; Tung H; Callaway EM; Hof PR; Keene CD; Levi BP; Linnarsson S; Mitra PP; Smith K; Hodge RD; Bakken TE; Lein ES
Article: SCIENCE. 2023;382(6667):eade9516
Comparative transcriptomics reveals human-specific cortical features
Jorstad NL; Song JHT; Exposito-Alonso D; Suresh H; Castro-Pacheco N; Krienen FM; Yanny AM; Close J; Gelfand E; Long B; Seeman SC; Travaglini KJ; Basu S; Beaudin M; Bertagnolli D; Crow M; Ding S-L; Eggermont J; Glandon A; Goldy J; Kiick K; Kroes T; Mcmillen D; Pham T; Rimorin C; Siletti K; Somasundaram S; Tieu M; Torkelson A; Feng G; Hopkins WD; Hollt T; Keene CD; Linnarsson S; Mccarroll SA; Lelieveldt BP; Sherwood CC; Smith K; Walsh CA; Dobin A; Gillis J; Lein ES; Hodge RD; Bakken TE
Article: SCIENCE. 2023;382(6667):eadf5357
Single-cell DNA methylation and 3D genome architecture in the human brain
Tian W; Zhou J; Bartlett A; Zeng Q; Liu H; Castanon RG; Kenworthy M; Altshul J; Valadon C; Aldridge A; Nery JR; Chen H; Xu J; Johnson ND; Lucero J; Osteen JK; Emerson N; Rink J; Lee J; Li YE; Siletti K; Liem M; Claffey N; O'Connor C; Yanny AM; Nyhus J; Dee N; Casper T; Shapovalova N; Hirschstein D; Ding S-L; Hodge R; Levi BP; Keene CD; Linnarsson S; Lein E; Ren B; Behrens MM; Ecker JR
Journal article: IBRO REPORTS. 2023;15:s40
WHOLE BRAIN SINGLE NUCLEUS TRANSCRIPTOMICS IN HUMAN: WHAT WE KNOW SO FAR
Siletti K; Hodge R; Albiach AM; Lee KW; Ding S-L; Hu L; Lönnerberg P; Bakken T; Casper T; Clark M; Dee N; Gloe J; Keene CD; Nyhus J; Tung H; Yanny AM; Arenas E; Lein E; Linnarsson S
Article: NATURE NEUROSCIENCE. 2023;26(5):891-901
Profiling spatiotemporal gene expression of the developing human spinal cord and implications for ependymoma origin
Li X; Andrusivova Z; Czarnewski P; Langseth CM; Andersson A; Liu Y; Gyllborg D; Braun E; Larsson L; Hu L; Alekseenko Z; Lee H; Avenel C; Kallner HK; Akesson E; Adameyko I; Nilsson M; Linnarsson S; Lundeberg J; Sundstrom E
Journal article: BIOINFORMATICS. 2023;39(4):btad126
RNAget: an API to securely retrieve RNA quantifications.
Upchurch S; Palumbo E; Adams J; Bujold D; Bourque G; Nedzel J; Graham K; Kagda MS; Assis P; Hitz B; Righi E; Guigó R; Wold BJ; GA4GH RNA-Seq Task Team
Article: NATURE CELL BIOLOGY. 2023;25(2):351-365
A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung
Sountoulidis A; Marco Salas S; Braun E; Avenel C; Bergenstrahle J; Theelke J; Vicari M; Czarnewski P; Liontos A; Abalo X; Andrusivova Z; Mirzazadeh R; Asp M; Li X; Hu L; Sariyar S; Martinez Casals A; Ayoglu B; Firsova A; Michaelsson J; Lundberg E; Waehlby C; Sundstroem E; Linnarsson S; Lundeberg J; Nilsson M; Samakovlis C
Article: STEM CELL REPORTS. 2023;18(1):337-353
Single-cell transcriptomics reveals correct developmental dynamics and high-quality midbrain cell types by improved hESC differentiation
Nishimura K; Yang S; Lee KW; Asgrimsdottir ES; Nikouei K; Paslawski W; Gnodde S; Lyu G; Hu L; Salto C; Svenningsson P; Hjerling-Leffler J; Linnarsson S; Arenas E
Article: JOURNAL OF MOLECULAR BIOLOGY. 2022;434(15):167606
Dynamical Systems Model of RNA Velocity Improves Inference of Single-cell Trajectory, Pseudo-time and Gene Regulation
Liu R; Pisco AO; Braun E; Linnarsson S; Zou J
Article: DEVELOPMENTAL CELL. 2022;57(11):1421-1436.e5
Developmental landscape of human forebrain at a single-cell level identifies early waves of oligodendrogenesis
van Bruggen D; Pohl F; Langseth CM; Kukanja P; Lee H; Albiach AM; Kabbe M; Meijer M; Linnarsson S; Hilscher MM; Nilsson M; Sundstrom E; Castelo-Branco G
Journal article: NEURO-ONCOLOGY. 2022;24(Supplement_1):i188
INSP-12. Molecular architecture of the human brain and brain cancer
Linnarsson S
Article: CELL GENOMICS. 2022;2(3):100106-100107
Single nucleus multi-omics identifies human cortical cell regulatory genome diversity
Luo C; Liu H; Xie F; Armand EJ; Siletti K; Bakken TE; Fang R; Doyle WI; Stuart T; Hodge RD; Hu L; Wang B-A; Zhang Z; Preissl S; Lee D-S; Zhou J; Niu S-Y; Castanon R; Bartlett A; Rivkin A; Wang X; Lucero J; Nery JR; Davis DA; Mash DC; Satija R; Dixon JR; Linnarsson S; Lein E; Behrens MM; Ren B; Mukamel EA; Ecker JR
Article: NATURE. 2021;598(7879):86-102
A multimodal cell census and atlas of the mammalian primary motor cortex
Callaway EM; Dong H-W; Ecker JR; Hawrylycz MJ; Huang ZJ; Lein ES; Ngai J; Osten P; Ren B; Tolias AS; White O; Zeng H; Zhuang X; Ascoli GA; Behrens MM; Chun J; Feng G; Gee JC; Ghosh SS; Halchenko YO; Hertzano R; Lim BK; Martone ME; Ng L; Pachter L; Ropelewski AJ; Tickle TL; Yang XW; Zhang K; Bakken TE; Berens P; Daigle TL; Harris JA; Jorstad NL; Kalmbach BE; Kobak D; Li YE; Liu H; Matho KS; Mukamel EA; Naeemi M; Scala F; Tan P; Ting JT; Xie F; Zhang M; Zhang Z; Zhou J; Zingg B; Bertagnolli D; Casper T; Crichton K; Dee N; Diep D; Ding S-L; Dong W; Dougherty EL; Fong O; Goldman M; Goldy J; Hodge RD; Hu L; Keene CD; Krienen FM; Kroll M; Lake BB; Lathia K; Linnarsson S; Liu CS; Macosko EZ; McCarroll SA; McMillen D; Nadaf NM; Thuc NN; Palmer CR; Thanh P; Plongthongkum N; Reed NM; Regev A; Rimorin C; Romanow WJ; Savoia S; Siletti K; Smith K; Sulc J; Tasic B; Tieu M; Torkelson A; Tung H; van Velthoven CTJ; Vanderburg CR; Yanny AM; Fang R; Hou X; Lucero JD; Osteen JK; Pinto-Duarte A; Poirion O; Preissl S; Wang X; Aldridge AI; Bartlett A; Boggeman L; O'Connor C; Castanon RG; Chen H; Fitzpatrick C; Luo C; Nery JR; Nunn M; Rivkin AC; Tian W; Dominguez B; Ito-Cole T; Jacobs M; Jin X; Lee C-T; Lee K-F; Miyazaki PA; Pang Y; Rashid M; Smith JB; Vu M; Williams E; Armand E; Biancalani T; Booeshaghi AS; Crow M; Dudoit S; Fischer S; Gillis J; Hu Q; Kharchenko PV; Niu S-Y; Ntranos V; Purdom E; Risso D; de Bezieux HR; Somasundaram S; Street K; Svensson V; Vaishnav ED; Van den Berge K; Welch JD; Yao Z; An X; Bateup HS; Bowman I; Chance RK; Foster NN; Galbavy W; Gong H; Gou L; Hatfield JT; Hintiryan H; Hirokawa KE; Kim G; Kramer DJ; Li A; Li X; Luo Q; Munoz-Castaneda R; Stafford DA; Feng Z; Jia X; Jiang S; Jiang T; Kuang X; Larsen R; Lesnar P; Li Y; Li Y; Liu L; Peng H; Qu L; Ren M; Ruan Z; Shen E; Song Y; Wakeman W; Wang P; Wang Y; Wang Y; Yin L; Yuan J; Zhao S; Zhao X; Narasimhan A; Palaniswamy R; Banerjee S; Ding L; Huilgol D; Huo B; Kuo H-C; Laturnus S; Li X; Mitra PP; Mizrachi J; Wang Q; Xie P; Xiong F; Yu Y; Eichhorn SW; Berg J; Bernabucci M; Bernaerts Y; Cadwell CR; Castro JR; Dalley R; Hartmanis L; Horwitz GD; Jiang X; Ko AL; Miranda E; Mulherkar S; Nicovich PR; Owen SF; Sandberg R; Sorensen SA; Tan ZH; Allen S; Hockemeyer D; Lee AY; Veldman MB; Adkins RS; Ament SA; Bravo HC; Carter R; Chatterjee A; Colantuoni C; Crabtree J; Creasy H; Felix V; Giglio M; Herb BR; Kancherla J; Mahurkar A; McCracken C; Nickel L; Olley D; Orvis J; Schor M; Hood G; Dichter B; Grauer M; Helba B; Bandrowski A; Barkas N; Carlin B; D'Orazi FD; Degatano K; Gillespie TH; Khajouei F; Konwar K; Thompson C; Kelly K; Mok S; Sunkin S
Article: NATURE. 2021;597(7875):196-205
A roadmap for the Human Developmental Cell Atlas
Haniffa M; Taylor D; Linnarsson S; Aronow BJ; Bader GD; Barker RA; Camara PG; Camp JG; Chedotal A; Copp A; Etchevers HC; Giacobini P; Gottgens B; Guo G; Hupalowska A; James KR; Kirby E; Kriegstein A; Lundeberg J; Marioni JC; Meyer KB; Niakan KK; Nilsson M; Olabi B; Pe'er D; Regev A; Rood J; Rozenblatt-Rosen O; Satija R; Teichmann SA; Treutlein B; Vento-Tormo R; Webb S
Article: NATURE MEDICINE. 2021;27(3):546-559
Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics
Muus C; Luecken MD; Eraslan G; Sikkema L; Waghray A; Heimberg G; Kobayashi Y; Vaishnav ED; Subramanian A; Smillie C; Jagadeesh KA; Duong ET; Fiskin E; Triglia ET; Ansari M; Cai P; Lin B; Buchanan J; Chen S; Shu J; Haber AL; Chung H; Montoro DT; Adams T; Aliee H; Allon SJ; Andrusivova Z; Angelidis I; Ashenberg O; Bassler K; Becavin C; Benhar I; Bergenstrahle J; Bergenstrahle L; Bolt L; Braun E; Bui LT; Callori S; Chaffin M; Chichelnitskiy E; Chiou J; Conlon TM; Cuoco MS; Cuomo ASE; Deprez M; Duclos G; Fine D; Fischer DS; Ghazanfar S; Gillich A; Giotti B; Gould J; Guo M; Gutierrez AJ; Habermann AC; Harvey T; He P; Hou X; Hu L; Hu Y; Jaiswal A; Ji L; Jiang P; Kapellos TS; Kuo CS; Larsson L; Leney-Greene MA; Lim K; Litvinukova M; Ludwig LS; Lukassen S; Luo W; Maatz H; Madissoon E; Mamanova L; Manakongtreecheep K; Leroy S; Mayr CH; Mbano IM; McAdams AM; Nabhan AN; Nyquist SK; Penland L; Poirion OB; Poli S; Qi C; Queen R; Reichart D; Rosas I; Schupp JC; Shea CV; Shi X; Sinha R; Sit RV; Slowikowski K; Slyper M; Smith NP; Sountoulidis A; Strunz M; Sullivan TB; Sun D; Talavera-Lopez C; Tan P; Tantivit J; Travaglini KJ; Tucker NR; Vernon KA; Wadsworth MH; Waldman J; Wang X; Xu K; Yan W; Zhao W; Ziegler CGK
Article: FRONTIERS IN IMMUNOLOGY. 2020;11:594243
Effects of In Vivo Gluten Challenge on PBMC Gene Expression Profiles in Diet Treated Celiac Disease
Yohannes DA; de Kauwe A; Kaukinen K; Kurppa K; Maki M; Anderson RP; Linnarsson S; Greco D; Saavalainen P
Article: NATURE. 2020;587(7834):377-386
LifeTime and improving European healthcare through cell-based interceptive medicine
Rajewsky N; Almouzni G; Gorski SA; Aerts S; Amit I; Bertero MG; Bock C; Bredenoord AL; Cavalli G; Chiocca S; Clevers H; De Strooper B; Eggert A; Ellenberg J; Fernandez XM; Figlerowicz M; Gasser SM; Hubner N; Kjems J; Knoblich JA; Krabbe G; Lichter P; Linnarsson S; Marine J-C; Marioni JC; Marti-Renom MA; Netea MG; Nickel D; Nollmann M; Novak HR; Parkinson H; Piccolo S; Pinheiro I; Pombo A; Popp C; Reik W; Roman-Roman S; Rosenstiel P; Schultze JL; Stegle O; Tanay A; Testa G; Thanos D; Theis FJ; Torres-Padilla M-E; Valencia A; Vallot C; van Oudenaarden A; Vidal M; Voet T
Article: CELL REPORTS. 2020;31(5):107601
Srebf1 Controls Midbrain Dopaminergic Neurogenesis
Toledo EM; Yang S; Gyllborg D; van Wijk KE; Sinha I; Varas-Godoy M; Grigsby CL; Lonnerberg P; Islam S; Steffensen KR; Linnarsson S; Arenas E
Article: NATURE COMMUNICATIONS. 2019;10(1):4137
A cell fitness selection model for neuronal survival during development
Wang Y; Wu H; Fontanet P; Codeluppi S; Akkuratova N; Petitpre C; Xue-Franzen Y; Niederreither K; Sharma A; Da Silva F; Comai G; Agirman G; Palumberi D; Linnarsson S; Adameyko I; Moqrich A; Schedl A; La Manno G; Hadjab S; Lallemend F
Article: MOLECULAR PSYCHIATRY. 2019;24(2):182-197
Biological annotation of genetic loci associated with intelligence in a meta-analysis of 87,740 individuals
Coleman JRI; Bryois J; Gaspar HA; Jansen PR; Savage JE; Skene N; Plomin R; Munoz-Manchado AB; Linnarsson S; Crawford G; Hjerling-Leffler J; Sullivan PF; Posthuma D; Breen G
Article: NATURE COMMUNICATIONS. 2019;10(1):514
Remodeling of secretory lysosomes during education tunes functional potential in NK cells
Goodridge JP; Jacobs B; Saetersmoen ML; Clement D; Hammer Q; Clancy T; Skarpen E; Brech A; Landskron J; Grimm C; Pfefferle A; Meza-Zepeda L; Lorenz S; Wiiger MT; Louch WE; Ask EH; Liu LL; Oei VYS; Kjallquist U; Linnarsson S; Patel S; Tasken K; Stenmark H; Malmberg K-J
Article: NATURE COMMUNICATIONS. 2018;9(1):3647
High-throughput chromatin accessibility profiling at single-cell resolution
Mezger A; Klemm S; Mann I; Brower K; Mir A; Bostick M; Farmer A; Fordyce P; Linnarsson S; Greenleaf W
Article: CELL REPORTS. 2018;24(8):2179-2190.e7
Diversity of Interneurons in the Dorsal Striatum Revealed by Single-Cell RNA Sequencing and PatchSeq
Munoz-Manchado AB; Gonzales CB; Zeisel A; Munguba H; Bekkouche B; Skene NG; Lonnerberg P; Ryge J; Harris KD; Linnarsson S; Hjerling-Leffler J
Article: NATURE GENETICS. 2018;50(7):912-919
Genome-wide association meta-analysis in 269,867 individuals identifies new genetic and functional links to intelligence
Savage JE; Jansen PR; Stringer S; Watanabe K; Bryois J; de Leeuw CA; Nagel M; Awasthi S; Barr PB; Coleman JRI; Grasby KL; Hammerschlag AR; Kaminski JA; Karlsson R; Krapohl E; Lam M; Nygaard M; Reynolds CA; Trampush JW; Young H; Zabaneh D; Hagg S; Hansell NK; Karlsson IK; Linnarsson S; Montgomery GW; Munoz-Manchado AB; Quinlan EB; Schumann G; Skene NG; Webb BT; White T; Arking DE; Avramopoulos D; Bilder RM; Bitsios P; Burdick KE; Cannon TD; Chiba-Falek O; Christoforou A; Cirulli ET; Congdon E; Corvin A; Davies G; Deary IJ; DeRosse P; Dickinson D; Djurovic S; Donohoe G; Conley ED; Eriksson JG; Espeseth T; Freimer NA; Giakoumaki S; Giegling I; Gill M; Glahn DC; Hariri AR; Hatzimanolis A; Keller MC; Knowles E; Koltai D; Konte B; Lahti J; Le Hellard S; Lencz T; Liewald DC; London E; Lundervold AJ; Malhotra AK; Melle I; Morris D; Need AC; Ollier W; Palotie A; Payton A; Pendleton N; Poldrack RA; Raikkonen K; Reinvang I; Roussos P; Rujescu D; Sabb FW; Scult MA; Smeland OB; Smyrnis N; Starr JM; Steen VM; Stefanis NC; Straub RE; Sundet K; Tiemeier H; Voineskos AN; Weinberger DR; Widen E; Yu J; Abecasis G; Andreassen OA; Breen G; Christiansen L; Debrabant B; Dick DM; Heinz A; Hjerling-Leffler J; Ikram MA; Kendler KS; Martin NG; Medland SE; Pedersen NL; Plomin R; Polderman TJC; Ripke S; van der Sluis S; Sullivan PF; Vrieze SI; Wright MJ; Posthuma D
Article: NATURE GENETICS. 2018;50(7):920-927
Meta-analysis of genome-wide association studies for neuroticism in 449,484 individuals identifies novel genetic loci and pathways
Nagel M; Jansen PR; Stringer S; Watanabe K; de Leeuw CA; Bryois J; Savage JE; Hammerschlag AR; Skene NG; Munoz-Manchado AB; White T; Tiemeier H; Linnarsson S; Hjerling-Leffler J; Polderman TJC; Sullivan PF; van der Sluis S; Posthuma D
Article: PLOS BIOLOGY. 2018;16(6):e2006387
Classes and continua of hippocampal CA1 inhibitory neurons revealed by single-cell transcriptomics
Harris KD; Hochgerner H; Skene NG; Magno L; Katona L; Gonzales CB; Somogyi P; Kessaris N; Linnarsson S; Hjerling-Leffler J
Article: NATURE GENETICS. 2018;50(6):825-833
Genetic identification of brain cell types underlying schizophrenia
Skene NG; Bryois JD; Bakken TE; Breen GP; Crowley JJ; Gaspar HA; Giusti-Rodriguez PC; Hodge RD; Miller JA; Munoz-Manchado AB; O'Donovan MC; Owen MJ; Pardinas AF; Ryge JP; Walters JT; Linnarsson S; Lein ES; Sullivan PF; Hjerling-Leffler JC
Article: NATURE NEUROSCIENCE. 2018;21(6):869-880
Neuronal atlas of the dorsal horn defines its architecture and links sensory input to transcriptional cell types
Haring M; Zeisel A; Hochgerner H; Rinwa P; Jakobsson JET; Lonnerberg P; La Manno G; Sharma N; Borgius L; Kiehn O; Lagerstrom MC; Linnarsson S; Ernfors P
Article: BMC CANCER. 2018;18(1):174
Exome sequencing of primary breast cancers with paired metastatic lesions reveals metastasis-enriched mutations in the A-kinase anchoring protein family (AKAPs)
Kjallquist U; Erlandsson R; Tobin NP; Alkodsi A; Ullah I; Stalhammar G; Karlsson E; Hatschek T; Hartman J; Linnarsson S; Bergh J
Article: NATURE NEUROSCIENCE. 2018;21(2):290-299
Conserved properties of dentate gyrus neurogenesis across postnatal development revealed by single-cell RNA sequencing
Hochgerner H; Zeisel A; Lobnnerberg P; Linnarsson S
Article: GENOME MEDICINE. 2017;9(1):114
Integrated Bayesian analysis of rare exonic variants to identify risk genes for schizophrenia and neurodevelopmental disorders
Nguyen HT; Bryois J; Kim A; Dobbyn A; Huckins LM; Munoz-Manchado AB; Ruderfer DM; Genovese G; Fromer M; Xu X; Pinto D; Linnarsson S; Verhage M; Smit AB; Hjerling-Leffler J; Buxbaum JD; Hultman C; Sklar P; Purcell SM; Lage K; He X; Sullivan PF; Stahl EA
Article: PLOS ONE. 2017;12(12):e0188772
Comparative cell cycle transcriptomics reveals synchronization of developmental transcription factor networks in cancer cells
Bostrom J; Sramkova Z; Salasova A; Johard H; Mahdessian D; Fedr R; Marks C; Medalova J; Soucek K; Lundberg E; Linnarsson S; Bryja V; Sekyrova P; Altun M; Andang M
Article: CELL STEM CELL. 2017;21(6):791-805.e9
Constitutively Active SMAD2/3 Are Broad-Scope Potentiators of Transcription-Factor- Mediated Cellular Reprogramming
Ruetz T; Pfisterer U; Di Stefano B; Ashmore J; Beniazza M; Tian TV; Kaemena DF; Tosti L; Tan W; Manning JR; Chantzoura E; Ottosson DR; Collombet S; Johnsson A; Cohen E; Yusa K; Linnarsson S; Graf T; Parmar M; Kaji K
Article: ELIFE. 2017;6:e27041
The Human Cell Atlas
Regev A; Teichmann SA; Lander ES; Amt I; Benoist C; Birney E; Bodenmiller B; Campbell P; Carninci P; Clatworthy M; Clevers H; Deplancke B; Dunham I; Eberwine J; Elis R; Enard W; Farmer A; Fugger L; Gottgens B; Hacohen N; Haniffa M; Hemberg M; Kim S; Klenerman P; Kriegstein A; Lein ED; Linnarsson S; Lundberg E; Lundeberg J; Majumder P; Marioni JC; Merad M; Mhlanga M; Nawijin M; Netea M; Nolan G; Pe'er D; Phillipakis A; Ponting CP; Quake S; Reik W; Rozenblatt-Rosen O; Sanes J; Satija R; Schumacher TN; Shalek A; Shapiro E; Sharma P; Shin JW; Stegle O; Stratton M; Stubbington MJT; Theis FJ; Uhlen M; Van Oudenaarden A; Wagner A; Watt F; Weissman J; Wold B; Xavier R; Yosef N
Article: SCIENTIFIC REPORTS. 2017;7(1):16327
STRT-seq-2i: dual-index 5′ single cell and nucleus RNA-seq on an addressable microwell array
Hochgerner H; Lonnerberg P; Hodge R; Mikes J; Heskol A; Hubschle H; Lin P; Picelli S; La Manno G; Ratz M; Dunne J; Husain S; Lein E; Srinivasan M; Zeisel A; Linnarsson S
Article: SCIENTIFIC REPORTS. 2017;7(1):6031
A comparative strategy for single-nucleus and single-cell transcriptomes confirms accuracy in predicted cell-type expression from nuclear RNA
Lake BB; Codeluppi S; Yung YC; Gao D; Chun J; Kharchenko PV; Linnarsson S; Zhang K
Article: MOLECULAR SYSTEMS BIOLOGY. 2017;13(5):930
Alternative TSSs are co-regulated in single cells in the mouse brain
Karlsson K; Lonnerberg P; Linnarsson S
Article: NATURE BIOTECHNOLOGY. 2017;35(5):444-452
Induction of functional dopamine neurons from human astrocytes in vitro and mouse astrocytes in a Parkinson's disease model
Cervo PRDV; Romanov RA; Spigolon G; Masini D; Martin-Montanez E; Toledo EM; La Manno G; Feyder M; Pifl C; Ng Y-H; Sanchez SP; Linnarsson S; Wernig M; Harkany T; Fisone G; Arenas E
Article: CANCER RESEARCH. 2017;77(7):1741-1752
Membrane-Depolarizing Channel Blockers Induce Selective Glioma Cell Death by Impairing Nutrient Transport and Unfolded Protein/Amino Acid Responses
Niklasson M; Maddalo G; Sramkova Z; Mutlu E; Wee S; Sekyrova P; Schmidt L; Fritz N; Dehnisch I; Kyriatzis G; Krafcikova M; Carson BB; Feenstra JM; Marinescu VD; Segerman A; Haraldsson M; Gustavsson A-L; Hammarstrom LGJ; Jensen AJ; Uhrbom L; Altelaar AFM; Linnarsson S; Uhlen P; Trantirek L; Vincent CT; Nelander S; Enger PO; Andang M
Article: BMC GENOMICS. 2017;18(1):126
Single-cell mRNA isoform diversity in the mouse brain
Karlsson K; Linnarsson S
Article: NATURE NEUROSCIENCE. 2017;20(2):176-188
Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes
Romanov RA; Zeisel A; Bakker J; Girach F; Hellysaz A; Tomer R; Alpar A; Mulder J; Clotman F; Keimpema E; Hsueh B; Crow AK; Martens H; Schwindling C; Calvigioni D; Bains JS; Mate Z; Szabo G; Yanagawa Y; Zhang M-D; Rendeiro A; Farlik M; Uhlen M; Wulff P; Bock C; Broberger C; Deisseroth K; Hokfelt T; Linnarsson S; Horvath TL; Harkany T
Article: CELL. 2016;167(2):566-580.e19
Molecular Diversity of Midbrain Development in Mouse, Human, and Stem Cells
La Manno G; Gyllborg D; Codeluppi S; Nishimura K; Salto C; Zeisel A; Borm LE; Stott SRW; Toledo EM; Villaescusa JC; Lonnerberg P; Ryge J; Barker RA; Arenas E; Linnarsson S
Article: DEVELOPMENT. 2016;143(19):3459-3469
The human PRD-like homeobox gene LEUTX has a central role in embryo genome activation
Jouhilahti E-M; Madissoon E; Vesterlund L; Tohonen V; Krjutskov K; Reyes AP; Petropoulos S; Mansson R; Linnarsson S; Burglin T; Lanner F; Hovatta O; Katayama S; Kere J
Article: NATURE NEUROSCIENCE. 2016;19(10):1331-1340
Visceral motor neuron diversity delineates a cellular basis for nipple- and pilo-erection muscle control
Furlan A; La Manno G; Lubke M; Haring M; Abdo H; Hochgerner H; Kupari J; Usoskin D; Airaksinen MS; Oliver G; Linnarsson S; Ernfors P
Article: CELL SYSTEMS. 2016;3(3):221-237.e9
Single-Cell Transcriptomics Reveals that Differentiation and Spatial Signatures Shape Epidermal and Hair Follicle Heterogeneity
Joost S; Zeisel A; Jacob T; Sun X; La Manno G; Lonnerberg P; Linnarsson S; Kasper M
Article: EMBO JOURNAL. 2016;35(18):1963-1978
A PBX1 transcriptional network controls dopaminergic neuron development and is impaired in Parkinson's disease
Villaescusa JC; Li B; Toledo EM; Cervo PRDV; Yang S; Stott SRW; Kaiser K; Islam S; Gyllborg D; Laguna-Goya R; Landreh M; Lonnerberg P; Falk A; Bergman T; Barker RA; Linnarsson S; Selleri L; Arenas E
Article: SCIENTIFIC REPORTS. 2016;6:28995
Characterization and target genes of nine human PRD-like homeobox domain genes expressed exclusively in early embryos
Madissoon E; Jouhilahti E-M; Vesterlund L; Tohonen V; Krjutskov K; Petropoulous S; Einarsdottir E; Linnarssons S; Lanner F; Mansson R; Hovatta O; Burglin TR; Katayama S; Kere J
Article: NATURE IMMUNOLOGY. 2016;17(7):797-805
Origin, fate and dynamics of macrophages at central nervous system interfaces
Goldmann T; Wieghofer P; Jordao MJC; Prutek F; Hagemeyer N; Frenzel K; Amann L; Staszewski O; Kierdorf K; Krueger M; Locatelli G; Hochgerner H; Zeiser R; Epelman S; Geissmann F; Priller J; Rossi FMV; Bechmann I; Kerschensteiner M; Linnarsson S; Jung S; Prinz M
Article: SCIENCE. 2016;353(6294):78-82
Visualization and analysis of gene expression in tissue sections by spatial transcriptomics
Stahl PL; Salmen F; Vickovic S; Lundmark A; Navarro JF; Magnusson J; Giacomello S; Asp M; Westholm JO; Huss M; Mollbrink A; Linnarsson S; Codeluppi S; Borg A; Ponten F; Costea PI; Sahlen P; Mulder J; Bergmann O; Lundeberg J; Frisen J
Article: SCIENCE. 2016;352(6291):1326-1329
Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system
Marques S; Zeisel A; Codeluppi S; van Bruggen D; Falcao AM; Xiao L; Li H; Haring M; Hochgerner H; Romanov RA; Gyllborg D; Munoz-Manchado AB; La Manno G; Lonnerberg P; Floriddia EM; Rezayee F; Ernfors P; Arenas E; Hjerling-Leffler J; Harkany T; Richardson WD; Linnarsson S; Castelo-Branco G
Article: CELL. 2016;165(4):1012-1026
Single-Cell RNA-Seq Reveals Lineage and X Chromosome Dynamics in Human Preimplantation Embryos
Petropoulos S; Edsgard D; Reinius B; Deng Q; Panula SP; Codeluppi S; Reyes AP; Linnarsson S; Sandberg R; Lanner F
Article: SCIENTIFIC REPORTS. 2016;6:22745
NOD-like receptor signaling and inflammasome-related pathways are highlighted in psoriatic epidermis
Tervaniemi MH; Katayama S; Skoog T; Siitonen HA; Vuola J; Nuutila K; Sormunen R; Johnsson A; Linnarsson S; Suomela S; Kankuri E; Kere J; Elomaa O
Article: NATURE BIOTECHNOLOGY. 2016;34(2):175-183
Integration of electrophysiological recordings with single-cell RNA-seq data identifies neuronal subtypes
Fuzik J; Zeisel A; Mate Z; Calvigioni D; Yanagawa Y; Szabo G; Linnarsson S; Harkany T
Article: STEM CELL REPORTS. 2015;5(5):843-855
Dynamics of Lgr6⁺ Progenitor Cells in the Hair Follicle, Sebaceous Gland, and Interfollicular Epidermis
Fullgrabe A; Joost S; Are A; Jacob T; Sivan U; Haegebarth A; Linnarsson S; Simons BD; Clevers H; Toftgard R; Kasper M
Article: NATURE COMMUNICATIONS. 2015;6:8207
Novel PRD-like homeodomain transcription factors and retrotransposon elements in early human development
Tohonen V; Katayama S; Vesterlund L; Jouhilahti E-M; Sheikhi M; Madissoon E; Filippini-Cattaneo G; Jaconi M; Johnsson A; Burglin TR; Linnarsson S; Hovatta O; Kere J
Article: STEM CELL REPORTS. 2015;5(3):350-364
Reprogramming Roadblocks Are System Dependent
Chantzoura E; Skylaki S; Menendez S; Kim S-I; Johnsson A; Linnarsson S; Woltjen K; Chambers I; Kaji K
Article: BMC GENOMICS. 2015;16(1):476
Gene expression analysis of skin grafts and cultured keratinocytes using synthetic RNA normalization reveals insights into differentiation and growth control
Katayama S; Skoog T; Jouhilahti E-M; Siitonen HA; Nuutila K; Tervaniemi MH; Vuola J; Johnsson A; Lonnerberg P; Linnarsson S; Elomaa O; Kankuri E; Kere J
Article: JOURNAL OF BIOLOGICAL CHEMISTRY. 2015;290(13):8348-8359
Rewired Metabolism in Drug-resistant Leukemia Cells A METABOLIC SWITCH HALLMARKED BY REDUCED DEPENDENCE ON EXOGENOUS GLUTAMINE
Staeubert C; Bhuiyan H; Lindahl A; Broom OJ; Zhu Y; Islam S; Linnarsson S; Lehtio J; Nordstrom A
Article: SCIENCE. 2015;347(6226):1138-1142
Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq
Zeisel A; Munoz-Manchado AB; Codeluppi S; Lonnerberg P; La Manno G; Jureus A; Marques S; Munguba H; He L; Betsholtz C; Rolny C; Castelo-Branco G; Hjerling-Leffler J; Linnarsson S
Article: GENOMICS. 2015;105(3):150-158
Amplification-free sequencing of cell-free DNA for prenatal non-invasive diagnosis of chromosomal aberrations
Karlsson K; Sahlin E; Iwarsson E; Westgren M; Nordenskjold M; Linnarsson S
Article: EMBO JOURNAL. 2015;34(1):36-54
A secretagogin locus of the mammalian hypothalamus controls stress hormone release
Romanov RA; Alpar A; Zhang M-D; Zeisel A; Calas A; Landry M; Fuszard M; Shirran SL; Schnell R; Dobolyi A; Olah M; Spence L; Mulder J; Martens H; Palkovits M; Uhlen M; Sitte HH; Botting CH; Wagner L; Linnarsson S; Hokfelt T; Harkany T
Article: NATURE NEUROSCIENCE. 2015;18(1):145-153
Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing
Usoskin D; Furlan A; Islam S; Abdo H; Lonnerberg P; Lou D; Hjerling-Leffler J; Haeggstrom J; Kharchenko O; Kharchenko PV; Linnarsson S; Ernfors P
Article: PLOS ONE. 2014;9(12):e115698
Selective Calcium Sensitivity in Immature Glioma Cancer Stem Cells
Wee S; Niklasson M; Marinescu VD; Segerman A; Schmidt L; Hermansson A; Dirks P; Forsberg-Nilsson K; Westermark B; Uhrbom L; Linnarsson S; Nelander S; Andang M
Article: CANCER CELL. 2014;25(6):794-808
Myelodysplastic Syndromes Are Propagated by Rare and Distinct Human Cancer Stem Cells In Vivo
Woll PS; Kjallquist U; Chowdhury O; Doolittle H; Wedge DC; Thongjuea S; Erlandsson R; Ngara M; Anderson K; Deng Q; Mead AJ; Stenson L; Giustacchini A; Duarte S; Giannoulatou E; Taylor S; Karimi M; Scharenberg C; Mortera-Blanco T; Macaulay IC; Clark S-A; Dybedal I; Josefsen D; Fenaux P; Hokland P; Holm MS; Cazzola M; Malcovati L; Tauro S; Bowen D; Boultwood J; Pellagatti A; Pimanda JE; Unnikrishnan A; Vyas P; Goehring G; Schlegelberger B; Tobiasson M; Kvalheim G; Constantinescu SN; Nerlov C; Nilsson L; Campbell PJ; Sandberg R; Papaemmanuil E; Hellstrom-Lindberg E; Linnarsson S; Jacobsen SEW
Article: NATURE METHODS. 2014;11(2):163-166
Quantitative single-cell RNA-seq with unique molecular identifiers
Islam S; Zeisel A; Joost S; La Manno G; Zajac P; Kasper M; Lonnerberg P; Linnarsson S
Journal article: GENOME BIOLOGY. 2014;15(10):486
Topographical transcriptome mapping of the mouse medial ganglionic eminence by spatially-resolved RNA-seq
Zechel S; Zajac P; Lönnerberg P; Ibáñez CF; Linnarsson S
Article: GENOME BIOLOGY. 2014;15(10):486
Topographical transcriptome mapping of the mouse medial ganglionic eminence by spatially resolved RNA-seq
Zechel S; Zajac P; Lonnerberg P; Ibanez CF; Linnarsson S
Article: PLOS ONE. 2013;8(12):e85270
Base Preferences in Non-Templated Nucleotide Incorporation by MMLV-Derived Reverse Transcriptases
Zajac P; Islam S; Hochgerner H; Lonnerberg P; Linnarsson S
Journal article: BLOOD. 2013;122(21):4195
Diverse Genetic Lesions In Myelodysplastic Syndromes Originate Exclusively In Rare MDS Stem Cells
Woll P; Kjällquist U; Chowdhury O; Erlandsson R; Doolittle H; Ngara M; Anderson K; Giannoulatou E; Taylor S; Deng Q; Mead AJ; Scharenberg C; Mortera-Blanco T; Macaulay IC; Clark S-A; Josefsen D; Kvalheim G; Göhring G; Schlegelberger B; Tobiasson M; Holm MS; Hokland P; Fenaux P; Nerlov C; Dybedal I; Nilsson L; Sandberg R; Hellström-Lindberg E; Linnarsson S; Jacobsen SEW
Article: BIOINFORMATICS. 2013;29(22):2943-2945
SAMstrt: statistical test for differential expression in single-cell transcriptome with spike-in normalization
Katayama S; Tohonen V; Linnarsson S; Kere J
Article: PLOS ONE. 2013;8(8):e72409
Erg Channel Is Critical in Controlling Cell Volume during Cell Cycle in Embryonic Stem Cells
Abdelhady S; Kitambi SS; Lundin V; Aufschnaiter R; Sekyrova P; Sinha I; Lundgren KT; Castelo-Branco G; Linnarsson S; Wedlich-Soeldner R; Teixeira A; Andang M
Article: NATURE. 2013;499(7456):88-91
High-resolution analysis with novel cell-surface markers identifies routes to iPS cells
O'Malley J; Skylaki S; Iwabuchi KA; Chantzoura E; Ruetz T; Johnsson A; Tomlinson SR; Linnarsson S; Kaji K
Article: EMBO JOURNAL. 2012;31(18):3718-3729
Positional differences of axon growth rates between sensory neurons encoded by runx3
Lallemend F; Sterzenbach U; Hadjab-Lallemend S; Aquino JB; Castelo-Branco G; Sinha I; Villaescusa JC; Levanon D; Wang Y; Franck MCM; Kharchenko O; Adameyko I; Linnarsson S; Groner Y; Turner E; Ernfors P
Article: PLOS ONE. 2012;7(6):e38833
RNA-Seq Analysis Reveals Different Dynamics of Differentiation of Human Dermis- and Adipose-Derived Stromal Stem Cells
Jaeaeger K; Islam S; Zajac P; Linnarsson S; Neuman T
Article: NATURE PROTOCOLS. 2012;7(5):813-828
Highly multiplexed and strand-specific single-cell RNA 5′ end sequencing
Islam S; Kjallquist U; Moliner A; Zajac P; Fan J-B; Lonnerberg P; Linnarsson S
Journal article: PLOS ONE. 2012;7(2):10.1371/annotation/3f0ddf
Correction: Highly Parallel Genome-Wide Expression Analysis of Single Mammalian Cells
Fan J-B; Chen J; April CS; Fisher JS; Klotzle B; Bibikova M; Kaper F; Ronaghi M; Linnarsson S; Ota T; Chien J; Laurent LC; Loring JF; Nisperos SV; Chen GY; Zhong JF
Article: PLOS ONE. 2012;7(2):e30794
Highly Parallel Genome-Wide Expression Analysis of Single Mammalian Cells
Fan J-B; Chen J; April CS; Fisher JS; Klotzle B; Bibikova M; Kaper F; Ronaghi M; Linnarsson S; Ota T; Chien J; Laurent LC; Nisperos SV; Chen GY; Zhong JF
Article: NATURE METHODS. 2011;9(1):72-74
Counting absolute numbers of molecules using unique molecular identifiers
Kivioja T; Vaharautio A; Karlsson K; Bonke M; Enge M; Linnarsson S; Taipale J
Article: GENOME RESEARCH. 2011;21(7):1160-1167
Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq
Islam S; Kjallquist U; Moliner A; Zajac P; Fan J-B; Lonnerberg P; Linnarsson S
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2010;107(37):16336-16341
En masse in vitro functional profiling of the axonal mechanosensitivity of sensory neurons
Usoskin D; Zilberter M; Linnarsson S; Hjerling-Leffler J; Uhlen P; Harkany T; Ernfors P
Journal article: CANCER RESEARCH. 2010;70:1149
Genetic analysis of single cells
Fan J-B; Chen J; April C; Klotzle B; Royce T; Cann G; Talasaz AH; Islam S; Kjallquist U; Linnarsson S
Journal article: EUROPEAN JOURNAL OF PAIN. 2009;13(S1):s99a-ss99
324 DEVELOPMENT OF A NOVEL IN VITRO SYSTEM FOR THE STUDY OF MECHANORECEPTIVE COMPONENT IN NEUROPATHIC PAIN
Usoskin DG; Linnarsson S; Uhlen P; Ernfors P
Article: NATURE BIOTECHNOLOGY. 2008;26(6):676-684
Rapid genome sequencing with short universal tiling probes
Pihlak A; Bauren G; Hersoug E; Lonnerberg P; Metsis A; Linnarsson S
Article: NUCLEIC ACIDS RESEARCH. 2004;32(16):e127
Whole-genome expression profiling through fragment display and combinatorial gene identification -: art. no. e127
Metsis A; Andersson U; Baurén G; Ernfors P; Lönnerberg P; Montelius A; Oldin M; Pihlak A; Linnarsson S
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2001;98(25):14681-14686
Activation by GDNF of a transcriptional program repressing neurite growth in dorsal root ganglia
Linnarsson S; Mikaels Å; Baudet C; Ernfors P
Article: BRAIN RESEARCH. 2000;75(1):61-69
Cell death in regenerating populations of neurons in BDNF mutant mice
Linnarsson S; Willson CA; Ernfors P
Article: NEURON. 1998;21(2):305-315
BDNF regulates Reelin expression and Cajal-Retzius cell development in the cerebral cortex
Ringstedt T; Linnarsson S; Wagner J; Lendahl U; Kokaia Z; Arenas E; Ernfors P; Ibáñez CF
Article: EUROPEAN JOURNAL OF NEUROSCIENCE. 1997;9(12):2581-2587
Learning deficit in BDNF mutant mice
Linnarsson S; Björklund A; Ernfors P
Article: DEVELOPMENT. 1996;122(2):491-500
Prenatal and postnatal requirements of NT-3 for sympathetic neuroblast survival and innervation of specific targets
Elshamy WM; Linnarsson S; Lee KF; Jaenisch R; Ernfors P
Article: JOURNAL OF COMPARATIVE NEUROLOGY. 1995;363(2):307-320
DEPENDENCE OF DEVELOPING GROUP IA AFFERENTS ON NEUROTROPHIN-3
KUCERA J; FAN GP; JAENISCH R; LINNARSSON S; ERNFORS P
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Employments

Professor, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, 2015-

Degrees and Education

Doctor Of Philosophy, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, 2001

Leadership and responsibility assignments

Dean, KI Solna, Karolinska Institutet, 2024-
Head of department, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, 2021-2023

Distinction and awards

Methusalem Lecture, VIB Leuven, 2023
Nicholson Lecture, Rockefeller University, 2017
Erik K. Fernström Prize, 2015

Articles

Employments

Degrees and Education

Leadership and responsibility assignments

Distinction and awards

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