RESEARCH

CARAMBA performs pre-clinical and clinical research, targeting endogenous and exogenous molecules, in combination with state-of-the-art bioinformatics with the global goal to improve human health care and disease prevention.

Group member Position
Kim Kultima Associate Professor
Torbjörn Åkerfeldt Physician
Eva Freyhult Researcher/Bioinformatician
Payam Khoonsari Emami Postdoctorial researcher
Stephanie Herman PhD student
Sandy Abujrais Laboratory technician
Niclas Rollborn Laboratory engineer

PROJECTS

Clinical Proteomics & Metabolomics
We have developed and implemented mass spectrometry-based methods for proteomics and metabolomics, including targeted and untargeted analyses of hormones, lipids and small signaling molecules in human cerebrospinal fluid and blood samples. These signals are further connected to biological pathways and demographic patient data. We are currently involved in three large efforts;

Characterization and stratification of multiple sclerosis phenotypes
Improve diagnostic markers for chronic pain states
Early detection of Alzheimer’s disease

We are also part of the EU Horizon 2020 project PhenoMeNal with focus on implementing clinical metabolomics into the clinic.

PUBLICATIONS

Preprints

Khoonsari PE, Moreno P, Bergmann S, Burman J, Capuccini M, Carone M, Cascante M, De Atauri P, Foguet C, Gonzalez-Beltran A, Hankemeier T, Haug K, He S, Herman S, Johnson D, Kale N, Larsson A, Neumann S, Peters K, Pireddu L, Rocca-Serra P, Roger P, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone SA, Schober D, Selivanov V, Thévenot EA, Van Vliet M, Zanetti G, Steinbeck C, Kultima K, Spjuth O
Interoperable and scalable metabolomics data analysis with microservices
bioRxiv. 213603 (2017). DOI: 10.1101/213603

2019

Herman S, Åkerfeldt T, Spjuth O, Burman J, Kultima K
Biochemical differences in cerebrospinal fluid between secondary progressive and relapsing-remitting multiple sclerosis
Cells 8(2) (2019) DOI: 10.3390/cells8020084

Khoonsari PE, Shevchenko G, Herman S, Remnestål J, Giedraitis V, Brundin R, Degerman Gunnarsson M, Kilander L, Zetterberg H, Nilsson P, Lannfelt L, Ingelsson M, Kultima K
Improved differential diagnosis of Alzheimer’s disease by integrating ELISA and mass spectrometry-based cerebrospinal fluid biomarkers
Journal of Alzheimer’s disease 67(2) (2019) DOI: 10.3233/JAD-180855

2018

Peters K, Bradbury J, Bergmann S, Capuccini M, Cascante M, de Atauri P, Ebbels TMD, Foguet C, Glen R, Gonzalez-Beltran A, Günther UL, Handakas E, Hankemeier T, Haug K, Herman S, Holub P, Izzo M, Jacob D, Johnson D, Jourdan F, Kale N, Karaman I, Khalili B, Khonsari PE, Kultima K, Lampa S, Larsson A, Ludwig C, Moreno P, Neumann S, Novella JA, O’Donovan C, Pearce JTM, Peluso A, Piras ME, Pireddu L, Reed MAC, Rocca-Serra P, Roger P, Rosato A, Rueedi R, Ruttkies C, Sadawi N, Salek RM, Sansone SA, Selivanov V, Spjuth O, Schober D, Thévenot EA, Tomasoni M, van Rijswijk M, van Vliet M, Viant MR, Weber RJM, Zanetti G, Steinbeck C
PhenoMeNal: Processing and analysis of Metabolomics data in the Cloud
GigaScience (2018) DOI. 10.1093/gigascience/giy149

Novella JA, Khoonsari PE, Herman S, Whitenack D, Capuccini M, Burman J, Kultima K, Spjuth O
Container-based bioinformatics with Pachyderm
Bioinformatics (2018). DOI: 10.1101/299032

Herman S, Khoonsari PE, Tolf A, Steinmetz J, Zetterberg H, Åkerfeldt T, Jakobsson P-J, Larsson A, Spjuth O, Burman J, Kultima K
Integration of Magnetic Resonance Imaging and Protein and Metabolite CSF Measurements to Enable Early Diagnosis of Secondary Progressive Multiple Sclerosis
Theranostics 8(16) (2018). DOI: 10.7150/thno.26249

Sandor K, Krishnan S, Agalave NM, Krock E, Salcido JV, Fernandez-Zafra T, Khoonsari PE, Svensson CI, Kultima K
Spinal injection of newly identified cerebellin-1 and cerebellin-2 peptides induce mechanical hypersensitivity in mice
Neuropeptides. (2018) 69:53-59. DOI: 10.1016/j.npep.2018.04.004

Khoonsari PE, Ossipova E, Lengqvist J, Svensson CI, Kosek E, Kadetoff D, Jakobsson PJ, Kultima K, Lampa J
The human CSF pain proteome
J Proteomics. (2018). DOI: 10.1016/j.jprot.2018.05.012

Khoonsari PE, Musunri S, Herman S, Svensson CI, Tanum L, Gordh T, Kultima K
Systematic analysis of the cerebrospinal fluid proteome of fibromyalgia patients
J Proteomics. (2018). DOI: 10.1016/j.jprot.2018.04.014

2017

Almandoz-Gil L, Welander H, Ihse E, Khoonsari PE, Musunuri S, Lendel C, Sigvardson J, Karlsson M, Ingelsson M, Kultima K, Bergström J
Low molar excess of 4-oxo-2-nonenal and 4-hydroxy-2-nonenal promote oligomerization of alpha-synuclein through different pathways
Free Radic Biol Med. 110:421-431 (2017). DOI: 10.1016/j.freeradbiomed.2017.07.004
Erratum in: Free Radic Biol Med. 2018 Feb 15

Nikitidou E, Khoonsari PE, Shevchenko G, Ingelsson M, Kultima K, Erlandsson A
Increased Release of Apolipoprotein E in Extracellular Vesicles Following Amyloid-β Protofibril Exposure of Neuroglial Co-Cultures
J Alzheimers Dis. 60(1):305-321 (2017). DOI: 10.3233/JAD-170278

Herman S, Khoonsari PE, Aftab O, Krishnan S, Strömbom E, Larsson R, Hammerling U, Spjuth O, Kultima M, Gustafsson M
Mass spectrometry based metabolomics for in vitro systems pharmacology: pitfalls, challenges, and computational solutions
Metabolomics. 13, 79 (2017). DOI: 10.1007/s11306-017-1213-z

van Rijswijk M, Beirnaert C, Caron C, Cascante M, Dominguez V, Dunn WB, Ebbels TMD, Giacomoni F, Gonzalez-Beltran A, Hankemeier T, Haug K, Izquierdo-Garcia JL, Jimenez RC, Jourdan F, Kale N, Klapa MI, Kohlbacher O, Koort K, Kultima K, Le Corguillé G, Moreno P, Moschonas NK, Neumann S, O’Donovan C, Reczko M, Rocca-Serra P, Rosato A, Salek RM, Sansone SA, Satagopam V, Schober D, Shimmo R, Spicer RA, Spjuth O, Thévenot EA, Viant MR, Weber RJM, Willighagen EL, Zanetti G, Steinbeck C
The future of metabolomics in ELIXIR
F1000Res. 6 (2017). doi: 10.12688/f1000research.12342.2

2016

Remnestål J, Just D, Mitsios N, Fredolini C, Mulder J, Schwenk JM, Uhlén M, Kultima K, Ingelsson M, Kilander L, Lannfelt L, Svenningsson P, Nellgård B, Zetterberg H, Blennow K, Nilsson P, Häggmark-Månberg A
CSF profiling of the human brain enriched proteome reveals associations of neuromodulin and neurogranin to Alzheimer’s disease
Proteomics Clin Appl. 1242-1253 (2016). doi: 10.1002/prca.201500150

Senkowski W, Jarvius M, Rubin J, Lengqvist J, Gustafsson MG, Nygren P, Kultima K, Larsson R, Fryknäs M
Large-Scale Gene Expression Profiling Platform for Identification of Context-Dependent Drug Responses in Multicellular Tumor Spheroids
Cell Chem Biol. 23(11):1428-1438 (2016). doi: 10.1016/j.chembiol.2016.09.013

Musunuri S, Khoonsari PE, Mikus M, Wetterhall M, Häggmark-Mänberg A, Lannfelt L, Erlandsson A, Bergquist J, Ingelsson M, Shevchenko G, Nilsson P, Kultima K
Increased Levels of Extracellular Microvesicle Markers and Decreased Levels of Endocytic/Exocytic Proteins in the Alzheimer’s Disease Brain
J Alzheimers Dis. 18;54(4):1671-1686 (2016)

Lind AL, Emami Khoonsari P, Sjödin M, Katila L, Wetterhall M, Gordh T, Kultima K
Spinal Cord Stimulation Alters Protein Levels in the Cerebrospinal Fluid of Neuropathic Pain Patients: A Proteomic Mass Spectrometric Analysis
Neuromodulation. 19(6):549-62 (2016). DOI: 10.1111/ner.12473

Adori C, Barde S, Vas S, Ebner K, Su J, Svensson C, Mathé AA, Singewald N, Reinscheid RR, Uhlén M, Kultima K, Bagdy G, Hökfelt T
Exploring the role of neuropeptide S in the regulation of arousal: a functional anatomical study
Brain Struct Funct. 221(7):3521-46 (2016). doi: 10.1007/s00429-015-1117-5

Khoonsari PE, Häggmark A, Lönnberg M, Mikus M, Kilander L, Lannfelt L, Bergquist J, Ingelsson M, Nilsson P, Kultima K, Shevchenko G
Analysis of the Cerebrospinal Fluid Proteome in Alzheimer’s Disease
PLoS One. 7;11(3):e0150672 (2016). DOI: 10.1371/journal.pone.0150672

2015

Musunuri S, Kultima K, Richard BC, Ingelsson M, Lannfelt L, Bergquist J, Shevchenko G
Micellar extraction possesses a new advantage for the analysis of Alzheimer’s disease brain proteome
Anal Bioanal Chem. 407(4):1041-57 (2015). doi: 10.1007/s00216-014-8320-8

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