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.

Previous and current research
Using primarily mass spectrometry, we perform large-scale proteomic and metabolomic studies with the aim to improve understanding of molecular mechanisms of disease, and to advance prediction of disease onset and progression.

Proteomics is the global screening of the proteome, consisting of the functional components in our body, the proteins. Proteins are encoded in and generated from our genome and are composed of sequences of amino acids folded into an active shape. Misfolding of proteins can cause functional impairment and if not taken care of can result in development of disease. Metabolomics is the comprehensive profiling of the dynamic molecular network called the metabolome, which consist of low-weight molecules or metabolites and is the closest biological layer to phenotype. As metabolites constitute all intermediate- or end product of all chemical pathways, changes caused by various pathophysiological processes will immediately leave traces in the metabolome.

Group members
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

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

2018

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 Jun 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

COLLABORATORS