Cancer Bioinformatics – Nick Tobin's Team

Our research integrates multi-omics, single-cell and spatial transcriptomic data with clinical and pathological information to advance precision oncology in breast cancer and across tumour types. We combine AI-driven computational approaches with large-scale molecular datasets to investigate tumour heterogeneity, tumour microenvironment interactions, biomarker development, and aging-related changes in cancer biology.

Publications

Selected publications

Article: JOURNAL OF CLINICAL ONCOLOGY. 2022;40(35):4071-4082
Twenty-Year Benefit From Adjuvant Goserelin and Tamoxifen in Premenopausal Patients With Breast Cancer in a Controlled Randomized Clinical Trial
Johansson A; Dar H; Veer LJVT; Tobin NP; Perez-Tenorio G; Nordenskjold A; Johansson U; Hartman J; Skoog L; Yau C; Benz CC; Esserman LJ; Stal O; Nordenskjold B; Fornander T; Lindstrom LS
Article: NPJ PRECISION ONCOLOGY. 2022;6(1):59
Reclassifying tumour cell cycle activity in terms of its tissue of origin
Lundberg A; Yi JJJ; Lindstrom LS; Tobin NP
Article: INTERNATIONAL JOURNAL OF CANCER. 2022;150(12):2072-2082
Clinical and molecular characteristics of estrogen receptor-positive ultralow risk breast cancer tumors identified by the 70-gene signature
Johansson A; Yu NY; Iftimi A; Tobin NP; 't Veer L; Nordenskjold B; Benz CC; Fornander T; Perez-Tenorio G; Stal O; Esserman LJ; Yau C; Lindstrom LS
Article: PLOS COMPUTATIONAL BIOLOGY. 2022;18(3):e1010020
Survival analysis of pathway activity as a prognostic determinant in breast cancer
Jeuken GS; Tobin NP; Kall L
Article: EUROPEAN JOURNAL OF CANCER. 2022;162:194-205
Interval breast cancer is associated with interferon immune response
Ugalde-Morales E; Grassmann F; Humphreys K; Li J; Eriksson M; Tobin NP; Lindstrom LS; Vallon-Christersson J; Borg A; Hall P; Czene K
Article: GENETICS IN MEDICINE. 2022;24(1):157-169
Novel loss-of-function variant in DENND5A impedes melanosomal cargo transport and predisposes to familial cutaneous melanoma
Yang M; Johnsson P; Brautigam L; Yang XR; Thrane K; Gao J; Tobin NP; Zhou Y; Yu R; Nagy N; Engstrom PG; Tuominen R; Eriksson H; Lundeberg J; Tucker MA; Goldstein AM; Egyhazi-Brage S; Zhao J; Cao Y; Hoiom V
Article: CELL REPORTS. 2021;36(8):109616
The Amot/integrin protein complex transmits mechanical forces required for vascular expansion
Zhang Y; Zhang Y; Kameishi S; Barutello G; Zheng Y; Tobin NP; Nicosia J; Hennig K; Chiu DK-C; Balland M; Barker TH; Cavallo F; Holmgren L
Article: CANCERS. 2021;13(5):1175
CD11c-CD8 Spatial Cross Presentation: A Novel Approach to Link Immune Surveillance and Patient Survival in Soft Tissue Sarcoma
Su Y; Tsagkozis P; Papakonstantinou A; Tobin NP; Gultekin O; Malmerfelt A; Ingelshed K; Neo SY; Lundquist J; Chaabane W; Nisancioglu MH; Leiss LW; Ostman A; Bergh J; Sedimbi S; Lehti K; Lundqvist A; Stragliotto CL; Haglund F; Ehnman M
Article: INTERNATIONAL JOURNAL OF CANCER. 2021;148(4):884-894
Association between breast cancer risk and disease aggressiveness: Characterizing underlying gene expression patterns
Ugalde-Morales E; Grassmann F; Humphreys K; Li J; Eriksson M; Tobin NP; Borg A; Vallon-Christersson J; Hall P; Czene K
Article: ONCOGENE. 2020;39(32):5430-5440
A pan-cancer analysis of the frequency of DNA alterations across cell cycle activity levels
Lundberg A; Lindstrom LS; Parker JS; Loverli E; Perou CM; Bergh J; Tobin NP
Article: MOLECULAR ONCOLOGY. 2020;14(5):951-963
Programmed death-ligand 1 gene expression is a prognostic marker in early breast cancer and provides additional prognostic value to 21-gene and 70-gene signatures in estrogen receptor-positive disease
Zerdes I; Sifakis EG; Matikas A; Chretien S; Tobin NP; Hartman J; Rassidakis GZ; Bergh J; Foukakis T
Article: JOURNAL OF CLINICAL INVESTIGATION. 2020;130(3):1185-1198
CD73 immune checkpoint defines regulatory NK cells within the tumor microenvironment
Neo SY; Yang Y; Record J; Ma R; Chen X; Chen Z; Tobin NP; Blake E; Seitz C; Thomas R; Wagner AK; Andersson J; de Boniface J; Bergh J; Murray S; Alici E; Childs R; Johansson M; Westerberg LS; Haglund F; Hartman J; Lundqvist A
Article: GLIA. 2020;68(2):316-327
Astrocytes enhance glioblastoma growth
Mega A; Nilsen MH; Leiss LW; Tobin NP; Miletic H; Sleire L; Strell C; Nelander S; Krona C; Hagerstrand D; Enger PO; Nister M; Ostman A
Article: CANCERS. 2019;11(10):E1479-1479
STAT3 Activity Promotes Programmed-Death Ligand 1 Expression and Suppresses Immune Responses in Breast Cancer
Zerdes I; Wallerius M; Sifakis EG; Wallmann T; Betts S; Bartish M; Tsesmetzis N; Tobin NP; Coucoravas C; Bergh J; Rassidakis GZ; Rolny C; Foukakis T
Article: EBIOMEDICINE. 2019;48:212-223
Generation of in situ sequencing based OncoMaps to spatially resolve gene expression profiles of diagnostic and prognostic markers in breast cancer
Svedlund J; Strell C; Qian X; Zilkens KJC; Tobin NP; Bergh J; Sieuwerts AM; Nilsson M
Article: JAMA ONCOLOGY. 2019;5(9):1304-1309
Assessment of Long-term Distant Recurrence-Free Survival Associated With Tamoxifen Therapy in Postmenopausal Patients With Luminal A or Luminal B Breast Cancer
Yu NY; Iftimi A; Yau C; Tobin NP; van 't Veer L; Hoadley KA; Benz CC; Nordenskjold B; Fornander T; Stal O; Czene K; Esserman LJ; Lindstrom LS
Article: JNCI-JOURNAL OF THE NATIONAL CANCER INSTITUTE. 2019;111(9):983-995
Impact of Epithelial-Stromal Interactions on Peritumoral Fibroblasts in Ductal Carcinoma in Situ
Strell C; Paulsson J; Jin S-B; Tobin NP; Mezheyeuski A; Roswall P; Mutgan C; Mitsios N; Johansson H; Wickberg SM; Svedlund J; Nilsson M; Hall P; Mulder J; Radisky DC; Pietras K; Bergh J; Lendahl U; Warnberg F; Ostman A
Article: CANCER IMMUNOLOGY IMMUNOTHERAPY. 2019;68(6):927-936
An immunosuppressive macrophage profile attenuates the prognostic impact of CD20-positive B cells in human soft tissue sarcoma
Tsagozis P; Augsten M; Zhang Y; Li T; Hesla A; Bergh J; Haglund F; Tobin NP; Ehnman M
Article: BREAST CANCER RESEARCH. 2019;21(1):36
Separation of breast cancer and organ microenvironment transcriptomes in metastases
Alzubi MA; Turner TH; Olex AL; Sohal SS; Tobin NP; Recio SG; Bergh J; Hatschek T; Parker JS; Sartorius CA; Perou CM; Dozmorov MG; Harrell JC
Article: BREAST CANCER RESEARCH. 2019;21(1):34
The long-term prognostic and predictive capacity of cyclin D1 gene amplification in 2305 breast tumours
Lundberg A; Lindstroem LS; Li J; Harrell JC; Darai-Ramqvist E; Sifakis EG; Foukakis T; Perou CM; Czene K; Bergh J; Tobin NP
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All publications from group members

Article: JNCI-JOURNAL OF THE NATIONAL CANCER INSTITUTE. 2026;118(7):1248-1256
Tamoxifen therapy benefit in luminal A and B breast cancer with 20-year follow-up
Danielsson O; Dar H; Nordenskjold A; Perez-Tenorio G; Nordenskjold B; Fornander T; Stal O; Tobin NP; Tutzauer J; Johansson A; Lindstrom LS
Preprint: MEDRXIV. 2026
The tumour microenvironment influences long-term tamoxifen benefit in postmenopausal ER+/HER2- breast cancer patients
Camargo-Romera P; Castresana-Aguirre M; Danielsson O; Dar H; Östman A; Czene K; Lindström LS; Tobin N
Article: INTERNATIONAL JOURNAL OF CANCER. 2026;158(4):1106-1115
Progesterone receptor (PR) intra-tumor heterogeneity in premenopausal breast cancer: A secondary analysis of a randomized trial
Danielsson O; Dar H; Perez-Tenorio G; Nordenskjold A; Yau C; Benz CC; Esserman LJ; Nordenskjold B; Stal O; Fornander T; Hartman J; Tobin NP; Johansson A; Lindstrom LS
Article: ONCOIMMUNOLOGY. 2025;14(1):2481109
Cellular and secretome profiling uncover immunological biomarkers in the prognosis of renal cell carcinoma patients
Tong L; Kremer V; Neo SY; Seitz C; Tobin NP; Seliger B; Harmenberg U; Colon E; Plogell A-HS; Liu LL; Lundqvist A
Article: BREAST CANCER RESEARCH. 2025;28(1):19
Computational decoding of cell-cycle phase effects on cancer hallmarks across breast cancer subtypes
Castresana-Aguirre M; Matikas A; Lindstrom LS; Tobin NP
Article: JNCI-JOURNAL OF THE NATIONAL CANCER INSTITUTE. 2025;117(5):868-878
Differential long-term tamoxifen therapy benefit by menopausal status in breast cancer patients: secondary analysis of a controlled randomized clinical trial
Johansson A; Dar H; Nordenskjold A; Perez-Tenorio G; Tobin NP; Yau C; Benz CC; Esserman LJ; van 't Veer LJ; Nordenskjold B; Stal O; Fornander T; Lindstrom LS
Article: CELL COMMUNICATION AND SIGNALING. 2025;23(1):184
Myogenic IGFBP5 levels in rhabdomyosarcoma are nourished by mesenchymal stromal cells and regulate growth arrest and apoptosis
Zhang Y; Katkhada K; Meng LZ; Zhao B; Tong S; Chaabane W; Kallai A; Tobin NP; Ostman A; Mega A; Ehnman M
Preprint: BIORXIV. 2025
Decoding Cell Cycle Phase Variations in Cancer Hallmarks Across Breast Cancer Subgroups
Castresana-Aguirre M; Matikas A; Lindström L; Tobin N
Journal article: ANNALS OF ONCOLOGY. 2024;35:s327
The tumour microenvironment influences long-term tamoxifen treatment response in breast cancer patients
Romera PC; Romero MR; Danielsson O; Dar HA; Lindstrom LS; Tobin NP
Journal article: ANNALS OF ONCOLOGY. 2024;35:s346
Long-term tamoxifen benefit in pre- and postmenopausal patients of high and low risk with luminal A and B breast cancer
Danielsson O; Dar HA; Nordenskjold A; Tenorio GP; Yau C; Benz C; Van't Veer LJ; Esserman L; Nordenskjold BA; Fornander T; Stal O; Tobin NP; Johansson A; Lindstrom LS
Journal article: ANNALS OF ONCOLOGY. 2024;35:s346
Differential long-term benefit of 2-year adjuvant tamoxifen therapy for luminal-type breast cancer: Insights from a 20-year follow-up analysis of the STO trials
Romero MR; Danielsson O; Fornander T; Nordenskjold A; Tenorio GP; Tobin NP; Nordenskjold BA; Stal O; Esserman L; Van't Veer LJ; Lindstrom LS
Journal article: ANNALS OF ONCOLOGY. 2024;35:s340
Gene expression landscape of the long-term tamoxifen resistance in premenopausal ER plus breast cancer patients in the STO-5 controlled randomized clinical trial with >20-year follow-up
Tutzauer J; De Vos JKJ; Nordenskjold A; Nordenskjold BA; Fornander T; Tenorio GP; Stal O; Tobin NP; Lindstrom LS
Journal article: ANNALS OF ONCOLOGY. 2024;35:s390
Biological tumor traits predicting late recurrence in premenopausal breast cancer patients: Insights from the STO-5 trial with 20-year follow-up
De Vos JKJ; Tutzauer J; Nordenskjold A; Nordenskjold BA; Fornander T; Tenorio GP; Stal O; Tobin NP; Lindstrom LS
Article: JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH. 2024;43(1):107
A phenotypic screening approach to target p60AmotL2-expressing invasive cancer cells
Fonseca P; Cui W; Struyf N; Tong L; Chaurasiya A; Casagrande F; Zhao H; Fernando D; Chen X; Tobin NP; Seashore-Ludlow B; Lundqvist A; Hartman J; Gondor A; Ostling P; Holmgren L
Article: BREAST CANCER RESEARCH. 2024;26(1):38
Clinically relevant gene signatures provide independent prognostic information in older breast cancer patients
Castresana-Aguirre M; Johansson A; Matikas A; Foukakis T; Lindstroem LS; Tobin NP
Journal article: BRIEFINGS IN BIOINFORMATICS. 2024;25(2):bbae069
Benchmarking enrichment analysis methods with the disease pathway network
Buzzao D; Castresana-Aguirre M; Guala D; Sonnhammer ELL
Preprint: BIORXIV. 2023
Benchmarking enrichment analysis methods with the disease pathway network
Buzzao D; Castresana-Aguirre M; Guala D; Sonnhammer ELL
Letter: CANCER COMMUNICATIONS. 2023;43(7):855-859
Renal cell carcinoma escapes NK cell-mediated immune surveillance through the downregulation of DNAM-1
Tong L; Kremer V; Neo SY; Liu Y; Chen Y; Wagner AK; Yang Y; Chen Z; Seitz C; Tobin NP; Ligtenberg MA; Alici E; Chen X; Haglund F; Seliger B; Harmenberg U; Colon E; Plogell A-HS; Liu LL; Lundqvist A
Journal article: CANCER RESEARCH. 2023;83(5):p6-01-08-p6-01-08
Gene signatures provide independent prognostic information in elderly breast cancer patients
Aguirre MC; Johansson A; Lindstrom LS; Tobin N
Preprint: MEDRXIV. 2023
Clinically relevant gene signatures provide independent prognostic information in older breast cancer patients
Castresana-Aguirre M; Johansson A; Matikas A; Foukakis T; Lindström L; Tobin N
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Cancer Bioinformatics – Nick Tobin's Team

Publications

Selected publications

All publications from group members

Staff and contact

Group leader

All members of the group