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Publications

50 latest publications

[1]
Klevebro, S., Panwar, M. B., Wackernagel, D., Hansen Pupp, I., Björkander, S., Danielsson, H. ... Nilsson, A. K. (2026). Early-life serum protein profiles associated with bronchopulmonary dysplasia in extremely preterm infants. Respiratory Research, 27(1).
[2]
Luo, Y.-B., Kenrick, J., Galindo-Feria, A. S., Notarnicola, A., Navas, A. D. U., Peralta-Garcia, I. ... Horuluoglu, B. (2026). Plasma Proteome Reflects Tissue Damage and Clinical Manifestations in Patients With Inflammatory Myopathies. Arthritis & Rheumatology.
[3]
Yavuz, M., Yavuz, H. G., Oksuzoglu, A. D., Bereketoglu, C., Mardinoglu, A. & Calimlioglu, B. (2026). A multi-omics systems toxicology framework reveals amino acid-mediated stress adaptation to deltamethrin exposure in a yeast model. Scientific Reports, 16(1).
[4]
Perpiñán, E., Liao, X., Safinia, N. & et al., (2026). Nrf2-mediated metabolic reprogramming drives regulatory T cell accumulation in hepatocellular carcinoma. Nature Communications, 17(1).
[5]
Han, W., Xiao, L., Sun, H., Xiang, G., Jia, Q., Wang, H. ... Lu, H. (2026). AlphaGEM enables precise genome-scale metabolic modelling by integrating protein structure alignment with deep-learning-based dark metabolism mining. Nature Communications, 17(1).
[6]
Katona, B., Schutten, R., Bertilsson, F., Hikmet, F., Oksvold, P., Forsberg, M. ... Lindskog, C. (2026). A multiplex tissue resource for high-resolution spatial protein profiling in the Human Protein Atlas. Protein Science, 35(9).
[7]
Kim, W., Li, M., Liao, X., Ozmen, S., Yildiz, E., Saracoglu, M. ... Mardinoglu, A. (2026). Targeting PKLR and lipogenic enzymes through JNK inhibition to develop a therapeutic strategy for MASLD and MASH. Frontiers in Pharmacology, 17.
[8]
Villanueva Raisman, A., Naess, J., Kotol, D. & Edfors, F. (2026). Shipping Conditions May Impact the Reliability of At-Home Microsampling Devices. Journal of Proteome Research, 25(8), 3817-3825.
[9]
Gnann, C., Sigaeva, A., Le, T., Cesnik, A. J., Sariyar, S., Mahdessian, D. ... Käller Lundberg, E. (2026). Dissecting autonomous enzymatic variability in single cells. Nature Communications, 17(1).
[10]
Arif, M., Doran, S., Clausen, M., Wikstrom, J., Bohlooly-Y, M., Bjornson, E. ... Boren, J. (2026). Integrative analysis of left ventricle and epicardial adipose tissue identifies SDHA and OGDH as candidate targets for ischemic heart disease. iScience, 29(7).
[11]
Danielsson, H., Portlock, T., Hellström, A., Nilsson, A., Sävman, K., Wackernagel, D. ... Elfvin, A. (2026). Supplementation with long-chain polyunsaturated fatty acids to extremely preterm infants associates with development of the intestinal microbiota. Pediatric Research.
[12]
Koc, A. C., Kocak, G., Kahveci, B., Mardinoglu, A., Karakülah, G., Utine, C. A. & Güven, S. (2026). Patient-derived cornea organoids as drug repurposing models for aniridia-associated keratopathy. Life Sciences, 402.
[13]
Elgosbi, M., Shi, M., Perpinan, E., Mique, R., Cerisuelo, M. & Sanchez-Fueyo, A. (2026). Single-cell RNA sequencing profiling of human livers during normothermic machine perfusion reveals molecular differences between steatotic and non-steatotic donor livers. Liver transplantation, 32(5), 39-40.
[14]
Kourti, C. M. (2026). Computational screening of natural and engineered formolase variants. .
[15]
Barapour, N., Sutantiwanichkul, T., Dodig-Crnkovic, T., Bendes, A., Dahl, L., Stensballe, A. ... Snyder, M. P. (2026). A comparison of deep multiomics profiles across ethnicity, geography, and age. Cell, 189(10), 3004-3024.
[16]
Kenrick, J., Preger, C., Bueno Álvez, M., Ulloa, M. A., Bergström, G., Notarnicola, A. ... Pin, E. (2026). Pan-disease blood protein profiles of rheumatic autoimmune diseases. Communications Medicine, 6(1).
[17]
Johansson, C., Boehler, J. F., Brown, K. J., Jimenez-Requena, A., Hober, A., Edfors, F. ... Al-Khalili Szigyarto, C. (2026). Quantification of a serum titin fragment reflects dystrophin restoration in mdx mice and disease severity in patients with dystrophinopathies. Journal of Neuromuscular Diseases.
[18]
Knave, A., Lupacchini, S. & Hudson, E. P. (2026). Systems approaches for optimizing CO2 fixation pathways. Current Opinion in Biotechnology, 100.
[19]
White, M. L., Mortier, J., Granqvist, L., Omnus, D. J., Louski, M., Crang, N. ... Jonas, K. (2026). Polyphosphate synthesis is essential for phosphate and ATP homeostasis during nutrient upshift. Proceedings of the National Academy of Sciences of the United States of America, 123(23).
[20]
Sayman, C., Toplutaş, E., Aylak, U., Safa, S. S., Savcılı, M., Karakuş, A. ... Yuluğ, B. (2026). Resting-state EEG microstates link neural dynamics to fluid intelligence in mild cognitive impairment. Frontiers in Aging Neuroscience, 18.
[21]
Parvizi, N., Hafi, M. E., Hajji, M., Bouzian, Y., Kim, W., Subaşioğlu, M. ... Mardinoglu, A. (2026). Novel pyrimidine derivatives as potent BUB1B inhibitors for clear cell renal cell carcinoma : From synthesis and characterization to docking insights and therapeutic validation. Journal of Molecular Structure, 1374.
[22]
van den Bosch, A. M.R., Khoo, J. H., Lu, Z., Liang, H., Wever, D., Pu, L. ... Huitinga, I. (2026). Microglial states associate with lesion dynamics in multiple sclerosis. Cell Reports, 45(6).
[23]
Ulukan, B., Yang, H., Uludag, H., Zhang, C., Mutlu, A., Dayangac, M. ... Zeybel, M. (2026). Plasma PDGFRβ and PSD4 methylation levels for non-invasive staging of liver fibrosis. Hepatology Forum, 7(2), 125-132.
[24]
Kim, W., Jin, H., Miao, P., Ozcan, M., Liao, X., Li, M. ... Mardinoglu, A. (2026). Phospho-JNK agonists show promising effects for the treatment of hepatocellular carcinoma. iScience, 29(6).
[25]
Jin, H., Meng, L., Yulug, B., Altay, Ö., Li, X., Cankaya, S. ... Mardinoglu, A. (2026). Machine learning based multi-omics analysis reveals key molecular determinants of Parkinson's disease severity. Neurobiology of Disease, 225.
[26]
Bergström, S., Björkander, S., Bueno Álvez, M., Kebede Merid, S., Danielsson, H., Bergström, A. ... Melén, E. (2026). Longitudinal protein profiling of blood during childhood into early adulthood. Nature Communications, 17(1).
[27]
Malihan-Yap, L., Schmedler, L., Pint, D., Medipally, H. K., Lackner, F., Fedrigotti, S. ... Gruber-Woelfler, H. (2026). Bioprinting of Nanocellulose Hydrogels for Photobiocatalysis Under Continuous Flow. ACS Sustainable Chemistry and Engineering, 14(14), 6599-6612.
[28]
Li, M. (2026). Multi-Disease Characterization and Classification through Transcriptomics–Based Multi-Omics Analysis (Doctoral thesis , KTH Royal Institute of Technology, Sweden, TRITA-CBH-FOU 2026:30). Retrieved from https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-381451.
[29]
Hikmet, F., Digre, A., Hansen, J. N., Schon, S. B., Käller Lundberg, E., Olovsson, M. ... Lindskog, C. (2026). A high-resolution spatial map of cilia-associated proteins in the human fallopian tube. Nature Communications, 17(1).
[30]
Panagoulias, K., Kim, W., Ozdemir, M., Turan, B., Mardinoglu, A., Turkez, H. ... Cacciatore, I. (2026). Development of Styryl-Modified 3,4-Dihydropyrimidin-2(1H)-ones as Potential Antitumor Agents. ChemMedChem, 21(7).
[31]
Bueno Álvez, M. (2026). The blood proteome as a window into human health and disease (Doctoral thesis , KTH Royal Institute of Technology, Stockholm, TRITA-CBH-FOU 2026:22). Retrieved from https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-380258.
[32]
Song, X., Green, E., Liao, X., Turkez, H., Yesil, G., Yuksel, B. ... Mardinoglu, A. (2026). OncoRisk : a state-of-the-art web server for bridging the oncogenic databases and pan-cancer cohorts to the translational oncology. Communications Biology, 9(1).
[33]
Song, X., Liao, X., Green, E., Altay, Ö., Turkez, H., Nielsen, J. ... Mardinoglu, A. (2026). GenRiskPro: A Comprehensive Whole-Genome Sequencing Analysis Platform for Clinical and Wellness Applications. Computational and Structural Biotechnology Journal, 35(2).
[34]
Song, X. (2026). Genomic-based approaches for identifying risk loci and facilitating precision medicine in human diseases (Doctoral thesis , KTH Royal Institute of Technology, Stockholm, TRITA-CBH-FOU 2026:18). Retrieved from https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-378880.
[35]
Fei, T., Uhlén, M., Xu, C. & et al., (2026). Evolutionary convergence and divergence of hippocampal cytoarchitecture between rodents and primates revealed by single-cell spatial transcriptomics. National Science Review, 13(5).
[36]
Lax, B. M., Escorial Garcia, M., Fernandez-Antunez, C., Bukh, J., Ramirez, S. & Welner, D. H. (2026). Enzymatic Glucosylation Enhances the Solubility of Niclosamide but Abrogates Its Therapeutic Efficacy. ACS Omega, 11(5), 8667-8677.
[37]
Brun, A., Quevedo, M., Sterling, L. A., Dekkers, D. H.W., Demmers, J., Hudson, E. P. & Strand, Å. (2026). ChIP-MS in Plant Systems: Mapping the H3K27ac Proteome During the Greening Process. Physiologia Plantarum, 178(1).
[38]
Dalakas, K., Engström, B. E., Abdellah, T., Bontell, T. O., Larsson, A., Nord, H. ... Casar-Borota, O. (2026). Mixed gangliocytoma-pituitary neuroendocrine tumour: clinical, immunohistochemical, and molecular genetic profiles in a series of four patients. Acta neuropathologica communications, 14(1).
[39]
Antonopoulos, K., Johansson, E., Kenrick, J., Dahl, L., Edfors, F., Uhlén, M. & Bueno Álvez, M. (2026). HDAnalyzeR : streamlining data analysis for biomarker research. Bioinformatics Advances, 6(1).
[40]
Lundgren, P., Danielsson, H., Panwar, M. B., Bueno Álvez, M., Pivodic, A., Zhong, W. ... Hellström, A. (2026). Proteomic Profile in Retinopathy of Prematurity: A Secondary Analysis of the Mega Donna Mega Randomized Clinical Trial. JAMA ophthalmology, 144(2), 174-184.
[41]
Cornillet, M., Båve, A. L., Sun, D., Nouairia, G., Villard, C., Grigoriadis, A. ... Bergquist, A. (2026). Proteome-scale autoantibody profiling in PSC: Associations with clinical phenotypes and evidence for neuroendocrine deregulations. JHEP Reports, 8(3).
[42]
Meng, L., Li, M., Kong, X., Zhang, T., Bueno Alvez, M., Liao, X. ... Mardinoglu, A. (2026). Machine learning identifies proteomic risk factors across 23 diseases. iScience, 29(2).
[43]
Resink, T., Sala, B. M., Sun, R., Han, X., Alici, E., Salazar-Onfray, F. ... Achour, A. (2026). Dynamical network analysis reveals long-range residue couplings at the pMHC interface underlying enhanced immunogenicity. npj Systems Biology and Applications, 12(1), 15.
[44]
Huokko, T., Sporre, E., Koch, B., Patil, P. P., Wey, L., Nikkanen, L. ... Allahverdiyeva, Y. (2026). Differences in photosystem II activity and carbon allocation during photomixotrophic growth in distinct wild-type strains of Synechocystis sp. PCC 6803. The Plant Journal, 125(2).
[45]
Sporre, E. (2026). Proteomics assisted synthetic biology applied to autotrophic bacteria (Doctoral thesis , KTH Royal Institute of Technology, TRITA-CBH-FOU 2026:10). Retrieved from https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-376793.
[46]
Dahl, L., Bendes, A., Bueno Alvez, M., Albrecht, V., Aghelpasand, H., Björkander, S. ... Schwenk, J. M. (2026). Exploration of immune phenotypes in self-sampling citizens. iScience, 29(2).
[47]
Bertilsson, F., Hikmet, F., Hansen, J. N., Uhlén, M., Méar, L. & Lindskog, C. (2026). A High-Resolution Subcellular Map of Proteins in Cells with Motile Cilia. Journal of Proteome Research, 25(1), 231-243.
[48]
Jin, S., Cenier, A., Wetzel, D., Arefaine, B., Moreno-Gonzalez, M., Stamouli, M. ... Schirmer, M. (2026). Microbial collagenase activity is linked to oral–gut translocation in advanced chronic liver disease. Nature Microbiology, 11(1), 211-227.
[49]
Chakaroun, R. M., Pradhan, M., Björnson, E., Arvidsson, D., Fridolfsson, J., Gummesson, A. ... Bäckhed, F. (2026). Multi-omic definition of metabolic obesity through adipose tissue–microbiome interactions. Nature Medicine, 32(1), 113-125.
[50]
Zhu, W., Fung, K., Dhami, P., Sharpe, P., Krivanek, J., Nibali, L. ... Neves, V. C.M. (2026). Characterising the Periodontal Granulation Tissue Using scRNAseq. Journal of Clinical Periodontology, 53(2), 308-320.