John Lövrot

About me
Publications
Public outreach and news

About me

Bioinformatician at National Bioinformatics Infrastructure Sweden (NBIS), SciLifeLab, Karolinska Institutet.

Providing support with advanced data analyses within nationally prioritised data-driven projects.

Engaged in the Precision Medicine and Diagnostics Data Science Node of the SciLifeLab &
Wallenberg National Program for Data-Driven Life Science (DDLS).

Articles

Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2023;120(1):e2209856120

Breast cancer patient-derived whole-tumor cell culture model for efficient drug profiling and treatment response prediction.

Chen X; Sifakis EG; Robertson S; Neo SY; Jun S-H; Tong L; Hui Min AT; Lövrot J; Hellgren R; Margolin S; Bergh J; Foukakis T; Lagergren J; Lundqvist A; Ma R; Hartman J
Article: ESMO OPEN. 2020;5(6):e001032

PD-1 protein and gene expression as prognostic factors in early breast cancer.

Matikas A; Zerdes I; Lövrot J; Sifakis E; Richard F; Sotiriou C; Rassidakis G; Bergh J; Valachis A; Foukakis T
Journal article: JOURNAL OF CLINICAL ONCOLOGY. 2020;38(15_suppl):545

PD-1 protein and gene expression in early breast cancer: Prognostic implications.

Zerdes I; Matikas A; Lövrot J; Sifakis EG; Richard F; Sotiriou C; Rassidakis GZ; Bergh JCS; Valachis A; Foukakis T
Article: CLINICAL CANCER RESEARCH. 2019;25(12):3702-3717

A Novel ACKR2-Dependent Role of Fibroblast-Derived CXCL14 in Epithelial-to-Mesenchymal Transition and Metastasis of Breast Cancer.

Sjöberg E; Meyrath M; Milde L; Herrera M; Lövrot J; Hägerstrand D; Frings O; Bartish M; Rolny C; Sonnhammer E; Chevigné A; Augsten M; Östman A
Article: NATURE COMMUNICATIONS. 2018;9(1):5150

Spatially and functionally distinct subclasses of breast cancer-associated fibroblasts revealed by single cell RNA sequencing.

Bartoschek M; Oskolkov N; Bocci M; Lövrot J; Larsson C; Sommarin M; Madsen CD; Lindgren D; Pekar G; Karlsson G; Ringnér M; Bergh J; Björklund Å; Pietras K
Journal article: ANNALS OF ONCOLOGY. 2018;29:ix3

9P Effect of combined CYP2C19 and CYP2D6 genotype on tamoxifen treatment outcome in breast cancer indicates endogenous and exogenous interplay

Xie H; Lövrot J; Lindh JD; Bergh J; Sim S
Article: BRITISH JOURNAL OF CANCER. 2018;119(7):840-846

A minority-group of renal cell cancer patients with high infiltration of CD20+B-cells is associated with poor prognosis.

Sjöberg E; Frödin M; Lövrot J; Mezheyeuski A; Johansson M; Harmenberg U; Egevad L; Sandström P; Östman A
Article: ONCOIMMUNOLOGY. 2018;7(9):e1466017

Dynamic evaluation of the immune infiltrate and immune function genes as predictive markers for neoadjuvant chemotherapy in hormone receptor positive, HER2 negative breast cancer.

Matikas A; Lövrot J; Ramberg A; Eriksson M; Lindsten T; Lekberg T; Hedenfalk I; Loman N; Bergh J; Hatschek T; Erlandsson A; Foukakis T
Article: PHARMACOGENOMICS. 2018;19(13):1027-1037

Effect of CYP2C19 and CYP2D6 genotype on tamoxifen treatment outcome indicates endogenous and exogenous interplay.

Sim S; Lövrot J; Lindh JD; Bergh J; Xie H
Article: JOURNAL OF CLINICAL INVESTIGATION. 2018;128(4):1355-1370

Evolutionary history of metastatic breast cancer reveals minimal seeding from axillary lymph nodes.

Ullah I; Karthik G-M; Alkodsi A; Kjällquist U; Stålhammar G; Lövrot J; Martinez N-F; Lagergren J; Hautaniemi S; Hartman J; Bergh J
Article: BRITISH JOURNAL OF CANCER. 2018;118(4):480-488

Immune gene expression and response to chemotherapy in advanced breast cancer.

Foukakis T; Lövrot J; Matikas A; Zerdes I; Lorent J; Tobin N; Suzuki C; Brage SE; Carlsson L; Einbeigi Z; Linderholm B; Loman N; Malmberg M; Fernö M; Skoog L; Bergh J; Hatschek T
Article: BMC CANCER. 2017;17(1):802

Intra-tumor heterogeneity in breast cancer has limited impact on transcriptomic-based molecular profiling.

Karthik G-M; Rantalainen M; Stålhammar G; Lövrot J; Ullah I; Alkodsi A; Ma R; Wedlund L; Lindberg J; Frisell J; Bergh J; Hartman J
Article: CANCER CELL. 2017;32(5):669-683.e5

An HIF-1α/VEGF-A Axis in Cytotoxic T Cells Regulates Tumor Progression.

Palazon A; Tyrakis PA; Macias D; Veliça P; Rundqvist H; Fitzpatrick S; Vojnovic N; Phan AT; Loman N; Hedenfalk I; Hatschek T; Lövrot J; Foukakis T; Goldrath AW; Bergh J; Johnson RS
Journal article: ANNALS OF ONCOLOGY. 2017;28:v68

219P Immune function and response to neoadjuvant chemotherapy in hormone receptor positive, HER2-negative breast cancer

Matikas A; Lövrot J; Ramberg A; Eriksson M; Lindsten T; Lekberg T; Hedenfalk I; Loman N; Bergh J; Erlandsson A; Hatschek T; Foukakis T
Article: JNCI-JOURNAL OF THE NATIONAL CANCER INSTITUTE. 2017;109(3):1-14

Estrogen Receptor β as a Therapeutic Target in Breast Cancer Stem Cells.

Ma R; Karthik G-M; Lövrot J; Haglund F; Rosin G; Katchy A; Zhang X; Viberg L; Frisell J; Williams C; Linder S; Fredriksson I; Hartman J
Article: CANCER LETTERS. 2015;367(1):76-87

mTOR inhibitors counteract tamoxifen-induced activation of breast cancer stem cells.

Karthik G-M; Ma R; Lövrot J; Kis LL; Lindh C; Blomquist L; Fredriksson I; Bergh J; Hartman J
Article: MOLECULAR ONCOLOGY. 2015;9(7):1384-1391

Gene expression profiling of sequential metastatic biopsies for biomarker discovery in breast cancer.

Foukakis T; Lövrot J; Sandqvist P; Xie H; Lindström LS; Giorgetti C; Jacobsson H; Hedayati E; Bergh J
Article: CANCER RESEARCH. 2015;75(12):2445-2456

Endothelial ALK1 Is a Therapeutic Target to Block Metastatic Dissemination of Breast Cancer.

Cunha SI; Bocci M; Lövrot J; Eleftheriou N; Roswall P; Cordero E; Lindström L; Bartoschek M; Haller BK; Pearsall RS; Mulivor AW; Kumar R; Larsson C; Bergh J; Pietras K
Article: ANNALS OF ONCOLOGY. 2015;26(1):81-88

Molecular subtype and tumor characteristics of breast cancer metastases as assessed by gene expression significantly influence patient post-relapse survival.

Tobin NP; Harrell JC; Lövrot J; Egyhazi Brage S; Frostvik Stolt M; Carlsson L; Einbeigi Z; Linderholm B; Loman N; Malmberg M; Walz T; Fernö M; Perou CM; Bergh J; Hatschek T; Lindström LS; TEX Trialists Group
Article: JOURNAL OF INTERVENTIONAL CARDIAC ELECTROPHYSIOLOGY. 2013;37(2):155-162

The reliability of cardiogenic impedance and correlation with echocardiographic and plethysmographic parameters for predicting CRT time intervals post implantation.

Sciaraffia E; Ginks MR; Gustafsson J; Karlsson A; Rinaldi CA; Lundqvist CB
Article: EUROPACE. 2011;13(7):984-991

Relationship between intracardiac impedance and left ventricular contractility in patients undergoing cardiac resynchronization therapy.

Ginks MR; Sciaraffia E; Karlsson A; Gustafsson J; Hamid S; Bostock J; Simon M; Blomström-Lundqvist C; Rinaldi CA
Article: PROTEOMICS. 2007;7(22):4135-4147

Comparative proteomics of industrial lager yeast reveals differential expression of the cerevisiae and non-cerevisiae parts of their genomes.

Caesar R; Palmfeldt J; Gustafsson JS; Pettersson E; Hashemi SH; Blomberg A
Article: ELECTROPHORESIS. 2005;26(22):4237-4242

A statistical model for unwarping of 1-D electrophoresis gels.

Glasbey C; Vali L; Gustafsson J
Article: PROTEOMICS. 2004;4(12):3791-3799

Statistical exploration of variation in quantitative two-dimensional gel electrophoresis data.

Gustafsson JS; Ceasar R; Glasbey CA; Blomberg A; Rudemo M
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All other publications

Meeting abstract: ANNALS OF ONCOLOGY. 2022;33(7):S1306

Breast cancer patient-derived whole-tumor cell culture model for efficient drug profiling and treatment response prediction

Chen X; Sifakis EG; Robertson S; Neo SY; Jun S-H; Tong L; Lovrot J; Tay A; Hellgren R; Margolin S; Bergh J; Foukakis T; Lagergren J; Lundqvist A; Ma R; Hartman J
Conference publication: JOURNAL OF CLINICAL ONCOLOGY. 2020;38(15)

PD-1 protein and gene expression in early breast cancer: Prognostic implications.

Zerdes I; Matikas A; Lovrot J; Sifakis EG; Richard F; Sotiriou C; Rassidakis GZ; Bergh JCS; Valachis A; Foukakis T
Review: CLINICAL CANCER RESEARCH. 2019;25(18):5717-5726

Prognostic Implications of PD-L1 Expression in Breast Cancer: Systematic Review and Meta-analysis of Immunohistochemistry and Pooled Analysis of Transcriptomic Data.

Matikas A; Zerdes I; Lövrot J; Richard F; Sotiriou C; Bergh J; Valachis A; Foukakis T
Conference publication: JOURNAL OF CLINICAL ONCOLOGY. 2019;37(15):e14284

Prognostic implications of PD-L1 expression in breast cancer at the protein and mRNA levels.

Matikas A; Zerdes I; Lovrot J; Richard F; Sotiriou C; Bergh JCS; Valachis A; Foukakis T
Conference publication: ANNALS OF ONCOLOGY. 2018;29:3

Effect of combined CYP2C19 and CYP2D6 genotype on tamoxifen treatment outcome in breast cancer indicates endogenous and exogenous interplay

Xie H; Lovrot J; Lindh JD; Bergh J; Sim S
Conference publication: VIRCHOWS ARCHIV. 2018;473:S30

Transcriptional profiling of endocrine resistant versus sensitive breast cancer uncovers gene expression programmes associated with therapeutic response

Schagerholm C; Robertson S; Govindasamy-Muralidharan K; Lovrot J; Chen X; Hartman J
Meeting abstract: JOURNAL OF CLINICAL ONCOLOGY. 2017;35:e23088

Regulation of PD-L1 in breast cancer

Zerdes I; Tsesmetzis N; Lovrot J; Rolny C; Bergh JCS; Rassidakis G; Foukakis T
Meeting abstract: CANCER RESEARCH. 2017;77:p6-01-04-p6-01-04

Evolutionary analyses of matched primary and metastatic breast cancer reveal both linear and parallel progression with lack of axillary lymph node involvement

Ullah I; Muralidharan KG; Alkodsi A; Kjallquist U; Stalhammar G; Lovrot J; Martinez NF; Lagergren J; Hautaniemi S; Hartman J; Bergh J
Conference publication: ANNALS OF ONCOLOGY. 2017;28

Immune function and response to neoadjuvant chemotherapy in hormone receptor positive, HER2-negative breast cancer

Matikas A; Lovrot J; Ramberg A; Eriksson M; Lindsten T; Lekberg T; Hedenfalk I; Loman N; Bergh J; Erlandsson A; Hatschek T; Foukakis T
Letter: NEW ENGLAND JOURNAL OF MEDICINE. 2014;371(1):84-85

Thyroid hormone inactivation in gastrointestinal stromal tumors.

Foukakis T; Lövrot J; Bergh J
Meeting abstract: JOURNAL OF CLINICAL ONCOLOGY. 2014;32(15):e22120

Sequential metastatic biopsies and functional imaging in breast cancer

Foukakis T; Lovrot J; Sandqvist P; Xie H; Lindstroem LS; Giorgetti C; Jacobsson H; Hedayati E; Bergh JCS
Published conference paper: ELECTROPHORESIS. 2002;23(11):1731-1744

Warping two-dimensional electrophoresis gel images to correct for geometric distortions of the spot pattern.

Gustafsson JS; Blomberg A; Rudemo M
Editorial comment: JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY. 2001;63:492-514

A penalized likelihood approach to image warping - Discussion

Molchanov I; Jennison C; Ersboll BK; Hancock E; Wilson R; Horgan G; Kent JT; Ashburner J; Dryden IL; Petrou M; Angulo JM; Berman M; Coleman R; Duta N; Jain AK; Ghosh JK; Murthy CA; Gray A; Gustafsson J; Rudemo M; Hogg D; Koch I; Linney A; Ramsay JO; Ramsay TO; Rao MM; Sebastiani G; de Souza K; Sun CM; Buckley M; Titterington DM; Trubuil A; Worsley KJ; Yu KM

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