Publications

• Mäntyselkä S, Ahvenlammi M, Vartiainen J, Halonen EJ, Kolari K, Wackerhage H,
  Permi P, Varjosalo M, Kelahaara MM, Ahtiainen JP, Kalenius E, Kivelä R, Hulmi
  JJ. Glycolytic metabolism and biomass production from glucose in human skeletal
  muscle growth. Am J Physiol Cell Physiol. 2025 Oct 10.
• Lång HKM, Roach TG, Hölttä M, Keskitalo S, Varjosalo M, Heiskanen K, Collins
  MV, Seppänen MRJ, Capelluto DGS, Ikonen E, Ryhänen SJ. A TOM1 variant impairs
  interaction with TOLLIP, autophagosome-lysosome fusion and regulation of innate
  immunity. Dis Model Mech. 2025 Sep 1;18(9):dmm052140.
• Eskici N, Gomez-Sanchez C, Madhusudan S, Pulli K, Keskitalo S, Turunen T,
  Vaaralahti K, Wang Y, Varjosalo M, Raivio T. Dual Role of DLK1 in GnRH Neuron
  Ontogeny. Stem Cell Rev Rep. 2025 Nov;21(8):2711-2726.
• Happonen LJ, Varjosalo M. State-of-the-Art and Future Directions in
  Structural Proteomics. Mol Cell Proteomics. 2025 Sep 3;24(10):101065.
• Mushtaq T, Lehtimäki J, Kogan K, Peränen J, Liu X, Varjosalo M, Manninen A,
  Lappalainen P. Roles of protein-protein interactions and monolayer mechanics in
  tricellulin localization to tricellular tight junctions. Biol Open. 2025 Sep
  15;14(9):bio061987.
• Cao L, Xu Y, Hu Y, Huang X, Fu F, Zhan S, Huang L, Feng Y, Irene Y, Li H,
  Markku V, Jorma KO, Zhang G, Lu B, Wang J, Liu W, Zhang X. Identification of
  c-Met on Tumor Cells as a Novel Receptor for B7-H3 Entails Implications for
  Cancer Cell Stemness and Targeted Therapy. MedComm (2020). 2025 Aug
  22;6(9):e70332.
• Mamia K, Kolbeinsdottir S, Labun K, Li Z, Komisarczuk A, Keskitalo S, Reint
  G, Loe Haugen F, Olaug Lindestad B, Skundberg Jensen S, Gjerdingen TJ, Tuhkala
  A, Wieczorek Ervik C, Kopcil P, Fatkhutdinov N, Bronken Martinsen KH, Erichsen
  HC, Szymanska M, Tölö E, Glumoff V, Saarela J, Melbye Michelsen T, Schalin-
  Jäntti C, Olweus J, Leinonen E, Varjosalo M, Valen E, Hautala T, Enge M,
  Martelius T, Dahal-Koirala S, Haapaniemi E. Precision T cell correction platform
  for inborn errors of immunity. Mol Ther. 2025 Aug 12:S1525-0016(25)00648-3.
• Malaymar Pinar D, Cerullo A, Wang Z, Tan Z, Varjosalo M. An Integrated High-
  Throughput Proteocistromic Framework for Mapping the Interactome and Targetome
  of Human Transcription Factors. Methods Mol Biol. 2025;2953:261-279.
• Huuskonen S, Liu X, Salokas K, Tuhkala A, Keskitalo S, Varjosalo M. A
  Comprehensive Data Processing Pipeline for Phosphoproteomics in Viral Infection
  Studies. Methods Mol Biol. 2025;2921:275-291.
• Hiltunen AE, Kangas SM, Gondane A, Koivisto H, Salokas K, Heikkinen A, Salo
  MH, Röning T, Tallgren A, Glumoff V, Denis MC, Karagianni N, Myllyharju J,
  Varjosalo M, Tanila H, Itkonen HM, Rämet M, Uusimaa J, Hinttala R. Altered
  behaviour and immune response in mice with NHLRC2 p.Asp148Tyr variant. Brain
  Behav Immun Health. 2025 May 22;46:101020.
• Ampuja M, Ericsson S, Paatero I, Chowdhury I, Villman J, Broberg M, Ramste
  A, Balboa D, Ojala T, Chong JX, Bamshad MJ, Priest JR, Varjosalo M, Kivelä R,
  Helle E. The ERBB2 c.1795C>T, p.Arg599Cys variant is associated with left
  ventricular outflow tract obstruction defects in humans. HGG Adv. 2025 Jul
  10;6(3):100446.
• Daddali R, Kettunen K, Turunen T, Knox AVC, Laine P, Chowdhury I, Vänttinen
  M, Mamia N, Stiegler AL, Boggon TJ, Kere J, Romberg N, Seppänen MRJ, Varjosalo
  M, Martelius T, Grönholm J. Novel heterozygous SPI1c.538C>T p.(Leu180Phe)
  variant causes PU.1 haploinsufficiency leading to agammaglobulinemia. Clin
  Immunol. 2025 Aug;277:110503.
• Thiruvaiyaru A, Mattila S, Sadeghi M, Naumenko K, Merits A, Varjosalo M,
  Ahola T. Proximity interactome of alphavirus replicase component nsP3 includes
  proviral host factors eIF4G and AHNAK. PLoS Pathog. 2025 Apr 7;21(4):e1013050.
  
• Hulmi JJ, Halonen EJ, Sharples AP, O'Connell TM, Kuikka L, Lappi VM, Salokas
  K, Keskitalo S, Varjosalo M, Ahtiainen JP. Human skeletal muscle possesses both
  reversible proteomic signatures and a retained proteomic memory after repeated
  resistance training. J Physiol. 2025 May;603(9):2655-2673.
• Iqbal S, Andersson S, Nesta E, Pentinmikko N, Kumar A, Kumar Jha S,
  Borshagovski D, Webb A, Gebert N, Viitala EW, Ritchie A, Scharaw S, Kuuluvainen
  E, Larsen HL, Saarinen T, Juuti A, Ristimäki A, Jeltsch M, Ori A, Varjosalo M,
  Pietiläinen KH, Ollila S, Jensen KB, Oudhoff MJ, Katajisto P. Fetal-like
  reversion in the regenerating intestine is regulated by mesenchymal asporin.
  Cell Stem Cell. 2025 Apr 3;32(4):613-626.e8.
• Polianskyte-Prause Z, Arora A, Taskinen JH, Chaurasiya V, Keskitalo S,
  Tuhkala A, Hilska I, Varjosalo M, Olkkonen VM. The role of Nir2, a lipid-
  transfer protein, in regulating endothelial cell functions. Biochim Biophys Acta
  Mol Cell Res. 2025 Mar;1872(3):119926. d
• Keskitalo S, Seppänen MRJ, Del Sol A, Varjosalo M. From rare to more common:
  The emerging role of omics in improving understanding and treatment of severe
  inflammatory and hyperinflammatory conditions. J Allergy Clin Immunol. 2025
  May;155(5):1435-1450.
• Valima E, Varis V, Bureiko K, Lempiäinen JK, Schroderus AM, Oksa L, Lohi O,
  Kinnunen T, Varjosalo M, Niskanen EA, Paakinaho V, Palvimo JJ. SUMOylation
  inhibition potentiates the glucocorticoid receptor to program growth arrest of
  acute lymphoblastic leukemia cells. Oncogene. 2025 May;44(18):1259-1271.
• Lima de Souza S, Asano T, Glumoff V, Keskitalo S, Pikkarainen K, Martelius
  T, Kaustio M, Saarela J, Kuismin O, Lappi-Blanco E, Jartti A, Yannopoulos F,
  Tiitto L, Seppänen MRJ, Boisson B, Casanova JL, Varjosalo M, Hautala T, Chen Z.
  Pulmonary Aspergillosis and Low HIES Score in a Family with STAT3 N-Terminal
  Domain Mutation. J Clin Immunol. 2025 Feb 10;45(1):73.
• Nagaraj M, Emmagouni SKG, Chaurasiya V, Li L, Nguyen VD, Keskitalo S,
  Varjosalo M, Zhou Y, Haridas PAN, Olkkonen VM. Insight into the function of the
  Golgi membrane protein GOLM1 in cholangiocytes through interactomic analysis.
  FEBS Lett. 2025 May;599(9):1299-1316.

Nagaraj M, Emmagouni SKG, Chaurasiya V, Li L, Nguyen VD, Keskitalo S,
Varjosalo M, Zhou Y, Haridas PAN, Olkkonen VM. Insight into the function of the
Golgi membrane protein GOLM1 in cholangiocytes through interactomic analysis.
FEBS Lett. 2025 May;599(9):1299-1316. doi: 10.1002/1873-3468.70001

Taskinen JH, Holopainen M, Ruhanen H, van der Stoel M, Käkelä R, Ikonen E,
Keskitalo S, Varjosalo M, Olkkonen VM. Functional omics of ORP7 in primary
endothelial cells. BMC Biol. 2024 Dec 18;22(1):292. doi:
10.1186/s12915-024-02087-6

Vukić D, Cherian A, Keskitalo S, Bong YT, Marônek M, Yadav L, Keegan LP,
Varjosalo M, O'Connell MA. Distinct interactomes of ADAR1 nuclear and
cytoplasmic protein isoforms and their responses to interferon induction.
Nucleic Acids Res. 2024 Dec 11;52(22):14184-14204. doi: 10.1093/nar/gkae1106
 

Huuskonen S, Liu X, Pöhner I, Redchuk T, Salokas K, Lundberg R, Maljanen S,
Belik M, Reinholm A, Kolehmainen P, Tuhkala A, Tripathi G, Laine P, Belanov S,
Auvinen P, Vartiainen M, Keskitalo S, Österlund P, Laine L, Poso A, Julkunen I,
Kakkola L, Varjosalo M. The comprehensive SARS-CoV-2 'hijackome' knowledge base.
Cell Discov. 2024 Dec 9;10(1):125. doi: 10.1038/s41421-024-00748-y

Malaymar Pinar D, Göös H, Tan Z, Kumpula EP, Chowdhury I, Wang Z, Zhang Q,
Salokas K, Keskitalo S, Wei GH, Kumbasar A, Varjosalo M. Nuclear Factor I Family
Members are Key Transcription Factors Regulating Gene Expression. Mol Cell
Proteomics. 2025 Jan;24(1):100890. doi: 10.1016/j.mcpro.2024.100890

Turkki P, Chowdhury I, Öhman T, Azizi L, Varjosalo M, Hytönen VP. Tensin-2
interactomics reveals interaction with GAPDH and a phosphorylation-mediated
regulatory role in glycolysis. Sci Rep. 2024 Aug 27;14(1):19862. doi:
10.1038/s41598-024-65787-7

Launonen KM, Varis V, Aaltonen N, Niskanen EA, Varjosalo M, Paakinaho V,
Palvimo JJ. Central role of SUMOylation in the regulation of chromatin
interactions and transcriptional outputs of the androgen receptor in prostate
cancer cells. Nucleic Acids Res. 2024 Sep 9;52(16):9519-9535. doi:
10.1093/nar/gkae653

Dashi G, Varjosalo M. Oncofusions - shaping cancer care. Oncologist. 2025
Jan 17;30(1):oyae126. doi: 10.1093/oncolo/oyae126

Pulli K, Saarimäki-Vire J, Ahonen P, Liu X, Ibrahim H, Chandra V,
Santambrogio A, Wang Y, Vaaralahti K, Iivonen AP, Känsäkoski J, Tommiska J,
Kemkem Y, Varjosalo M, Vuoristo S, Andoniadou CL, Otonkoski T, Raivio T. A
splice site variant in MADD affects hormone expression in pancreatic β cells and
pituitary gonadotropes. JCI Insight. 2024 May 22;9(10):e167598. doi:
10.1172/jci.insight.167598

Liu X, Abad L, Chatterjee L, Cristea IM, Varjosalo M. Mapping protein-
protein interactions by mass spectrometry. Mass Spectrom Rev. 2024 May
14:10.1002/mas.21887. doi: 10.1002/mas.21887

Meriranta L, Sorri S, Huse K, Liu X, Spasevska I, Zafar S, Chowdhury I,
Dufva O, Sahlberg E, Tandarić L, Karjalainen-Lindsberg ML, Hyytiäinen M,
Varjosalo M, Myklebust JH, Leppä S. Disruption of KLHL6 Fuels Oncogenic Antigen
Receptor Signaling in B-Cell Lymphoma. Blood Cancer Discov. 2024 Sep
3;5(5):331-352. doi: 10.1158/2643-3230.BCD-23-0182

Nurmi K, Silventoinen K, Keskitalo S, Rajamäki K, Kouri VP, Kinnunen M,
Jalil S, Maldonado R, Wartiovaara K, Nievas EI, Denita-Juárez SP, Duncan CJA,
Kuismin O, Saarela J, Romo I, Martelius T, Parantainen J, Beklen A, Bilicka M,
Matikainen S, Nordström DC, Kaustio M, Wartiovaara-Kautto U, Kilpivaara O, Klein
C, Hauck F, Jahkola T, Hautala T, Varjosalo M, Barreto G, Seppänen MRJ, Eklund
KK. Truncating NFKB1 variants cause combined NLRP3 inflammasome activation and
type I interferon signaling and predispose to necrotizing fasciitis. Cell Rep
Med. 2024 Apr 16;5(4):101503. doi: 10.1016/j.xcrm.2024.101503 

Laulumaa S, Kumpula EP, Huiskonen JT, Varjosalo M. Author Correction:
Structure and interactions of the endogenous human Commander complex. Nat Struct
Mol Biol. 2024 May;31(5):846. doi: 10.1038/s41594-024-01273-y. Erratum for: Nat
Struct Mol Biol. 2024 Jun;31(6):925-938. doi: 10.1038/s41594-024-01246-1. 

Norppa AJ, Chowdhury I, van Rooijen LE, Ravantti JJ, Snel B, Varjosalo M,
Frilander MJ. Distinct functions for the paralogous RBM41 and U11/U12-65K
proteins in the minor spliceosome. Nucleic Acids Res. 2024 Apr
24;52(7):4037-4052. doi: 10.1093/nar/gkae070

Laulumaa S, Kumpula EP, Huiskonen JT, Varjosalo M. Structure and
interactions of the endogenous human Commander complex. Nat Struct Mol Biol.
2024 Jun;31(6):925-938. doi: 10.1038/s41594-024-01246-1. Epub 2024 Mar 8.
Erratum in: Nat Struct Mol Biol. 2024 May;31(5):846. doi:
10.1038/s41594-024-01273-y.

Mähönen K, Keskitalo S, Salokas K, Tuhkala A, Panelius J, Ranki A, Varjosalo
M. Mass spectrometry -based proteomic analysis of the skin of patients with
localized scleroderma. J Dermatol Sci. 2024 Mar;113(3):148-150. doi:
10.1016/j.jdermsci.2024.01.005.

Gawriyski L, Tan Z, Liu X, Chowdhury I, Malaymar Pinar D, Zhang Q, Weltner
J, Jouhilahti EM, Wei GH, Kere J, Varjosalo M. Interaction network of human
early embryonic transcription factors. EMBO Rep. 2024 Mar;25(3):1589-1622. doi:
10.1038/s44319-024-00074-0.

Bogacheva MS, Kuivanen S, Potdar S, Hassinen A, Huuskonen S, Pöhner I, Luck
TJ, Turunen L, Feodoroff M, Szirovicza L, Savijoki K, Saarela J, Tammela P,
Paavolainen L, Poso A, Varjosalo M, Kallioniemi O, Pietiäinen V, Vapalahti O.
Drug repurposing platform for deciphering the druggable SARS-CoV-2 interactome.
Antiviral Res. 2024 Mar;223:105813. doi: 10.1016/j.antiviral.2024.105813

Deen AJ, Adinolfi S, Härkönen J, Patinen T, Liu X, Laitinen T, Takabe P,
Kainulainen K, Pasonen-Seppänen S, Gawriyski LM, Arasu UT, Selvarajan I, Mäkinen
P, Laitinen H, Kansanen E, Kaikkonen MU, Poso A, Varjosalo M, Levonen AL.
Oncogenic KEAP1 mutations activate TRAF2-NFκB signaling to prevent apoptosis in
lung cancer cells. Redox Biol. 2024 Feb;69:103031. doi:10.1016/j.redox.2024.103031