Publications 2025

Nassar AH, Kim C, Adeyelu T, Bou Farhat E, Abushukair H, Rakaee M, Matteson K, Lau SF, Takabe Y, Ocejo A, Ardeshir-Larijani F, Leal T, Ramalingam S, Alam S, Gray JE, Hicks J, Kaldas D, Baena J, Berjaga MZ, Nana FA, Grohe C, Leuders H, Citarella F, Cortellini A, Mingo EC et al. (2025)
Integrated molecular and clinical characterization of pulmonary large cell neuroendocrine carcinoma
Nat Commun, 16 (1), 7717
DOI 10.1038/s41467-025-63091-0, PubMed 40830141

Rakaee M, Tafavvoghi M, Ricciuti B, Alessi JV, Cortellini A, Citarella F, Nibid L, Perrone G, Adib E, Fulgenzi CAM, Hidalgo Filho CM, Di Federico A, Jabar F, Hashemi S, Houda I, Richardsen E, Rasmussen Busund LT, Donnem T, Bahce I, Pinato DJ, Helland Å, Sholl LM, Awad MM, Kwiatkowski DJ (2025)
Deep Learning Model for Predicting Immunotherapy Response in Advanced Non-Small Cell Lung Cancer
JAMA Oncol, 11 (2), 109-118
DOI 10.1001/jamaoncol.2024.5356, PubMed 39724105

Publications 2024

Førde D, Kilvær T, Pedersen MI, Blix ES, Urbarova I, Paulsen EE, Rakaee M, Busund LR, Donnem T, Andersen S (2024)
High density of TCF1+ stem-like tumor-infiltrating lymphocytes is associated with favorable disease-specific survival in NSCLC
Front Immunol, 15, 1504220
DOI 10.3389/fimmu.2024.1504220, PubMed 39749327

Kerepesi C, Abushukair HM, Ricciuti B, Nassar AH, Adib E, Alessi JV, Pecci F, Rakaee M, Fadlullah MZH, Tőkés AM, Rodig SJ, Awad MM, Tan AC, Bakacs T, Naqash AR (2024)
Association of Baseline Tumor-Specific Neoantigens and CD8⁺ T-Cell Infiltration With Immune-Related Adverse Events Secondary to Immune Checkpoint Inhibitors
JCO Precis Oncol, 8, e2300439
DOI 10.1200/PO.23.00439, PubMed 38330262

Tafavvoghi M, Sildnes A, Rakaee M, Shvetsov N, Bongo LA, Busund LR, Møllersen K (2024)
Deep learning-based classification of breast cancer molecular subtypes from H&E whole-slide images
J Pathol Inform, 16, 100410
DOI 10.1016/j.jpi.2024.100410, PubMed 39720418

Publications 2023

Gjuka D, Adib E, Garrison K, Chen J, Zhang Y, Li W, Boutz D, Lamb C, Tanno Y, Nassar A, El Zarif T, Kale N, Rakaee M, Mouhieddine TH, Alaiwi SA, Gusev A, Rogers T, Gao J, Georgiou G, Kwiatkowski DJ, Stone E (2023)
Enzyme-mediated depletion of methylthioadenosine restores T cell function in MTAP-deficient tumors and reverses immunotherapy resistance
Cancer Cell, 41 (10), 1774-1787.e9
DOI 10.1016/j.ccell.2023.09.005, PubMed 37774699

Nibid L, Greco C, Cordelli E, Sabarese G, Fiore M, Liu CZ, Ippolito E, Sicilia R, Miele M, Tortora M, Taffon C, Rakaee M, Soda P, Ramella S, Perrone G (2023)
Deep pathomics: A new image-based tool for predicting response to treatment in stage III non-small cell lung cancer
PLoS One, 18 (11), e0294259
DOI 10.1371/journal.pone.0294259, PubMed 38015944

Paulsen EE, Andersen S, Rakaee M, Pedersen MI, Lombardi AP, Pøhl M, Kilvaer T, Busund LT, Pezzella F, Donnem T (2023)
Impact of microvessel patterns and immune status in NSCLC: a non-angiogenic vasculature is an independent negative prognostic factor in lung adenocarcinoma
Front Oncol, 13, 1157461
DOI 10.3389/fonc.2023.1157461, PubMed 37182191

Rakaee M, Adib E, Ricciuti B, Sholl LM, Shi W, Alessi JV, Cortellini A, Fulgenzi CAM, Viola P, Pinato DJ, Hashemi S, Bahce I, Houda I, Ulas EB, Radonic T, Väyrynen JP, Richardsen E, Jamaly S, Andersen S, Donnem T, Awad MM, Kwiatkowski DJ (2023)
Association of Machine Learning-Based Assessment of Tumor-Infiltrating Lymphocytes on Standard Histologic Images With Outcomes of Immunotherapy in Patients With NSCLC
JAMA Oncol, 9 (1), 51-60
DOI 10.1001/jamaoncol.2022.4933, PubMed 36394839

Rakaee M, Andersen S, Giannikou K, Paulsen EE, Kilvaer TK, Busund LR, Berg T, Richardsen E, Lombardi AP, Adib E, Pedersen MI, Tafavvoghi M, Wahl SGF, Petersen RH, Bondgaard AL, Yde CW, Baudet C, Licht P, Lund-Iversen M, Grønberg BH, Fjellbirkeland L, Helland Å, Pøhl M, Kwiatkowski DJ, Donnem T (2023)
Machine learning-based immune phenotypes correlate with STK11/KEAP1 co-mutations and prognosis in resectable NSCLC: a sub-study of the TNM-I trial
Ann Oncol, 34 (7), 578-588
DOI 10.1016/j.annonc.2023.04.005, PubMed 37100205

Ricciuti B, Elkrief A, Alessi J, Wang X, Li Y, Gupta H, Muldoon DM, Bertram AA, Pecci F, Lamberti G, Di Federico A, Barrichello A, Vaz VR, Gandhi M, Lee E, Shapiro GI, Park H, Nishino M, Lindsay J, Felt KD, Sharma B, Cherniack AD, Rodig S, Gomez DR, Shaverdian N et al. (2023)
Clinicopathologic, Genomic, and Immunophenotypic Landscape of ATM Mutations in Non-Small Cell Lung Cancer
Clin Cancer Res, 29 (13), 2540-2550
DOI 10.1158/1078-0432.CCR-22-3413, PubMed 37097610

Publications 2021

Jamaly S, Rakaee M, Abdi R, Tsokos GC, Fenton KA (2021)
Interplay of immune and kidney resident cells in the formation of tertiary lymphoid structures in lupus nephritis
Autoimmun Rev, 20 (12), 102980
DOI 10.1016/j.autrev.2021.102980, PubMed 34718163

Rakaee M, Kilvaer TK, Jamaly S, Berg T, Paulsen EE, Berglund M, Richardsen E, Andersen S, Al-Saad S, Poehl M, Pezzella F, Kwiatkowski DJ, Bremnes RM, Busund LR, Donnem T (2021)
Tertiary lymphoid structure score: a promising approach to refine the TNM staging in resected non-small cell lung cancer
Br J Cancer, 124 (10), 1680-1689
DOI 10.1038/s41416-021-01307-y, PubMed 33723388

Ramberg H, Richardsen E, de Souza GA, Rakaee M, Stensland ME, Braadland PR, Nygård S, Ögren O, Guldvik IJ, Berge V, Svindland A, Taskén KA, Andersen S (2021)
Proteomic analyses identify major vault protein as a prognostic biomarker for fatal prostate cancer
Carcinogenesis, 42 (5), 685-693
DOI 10.1093/carcin/bgab015, PubMed 33609362

Stoen MJ, Andersen S, Rakaee M, Pedersen MI, Ingebriktsen LM, Bremnes RM, Donnem T, Lombardi APG, Kilvaer TK, Busund LT, Richardsen E (2021)
High expression of miR-17-5p in tumor epithelium is a predictor for poor prognosis for prostate cancer patients
Sci Rep, 11 (1), 13864
DOI 10.1038/s41598-021-93208-6, PubMed 34226620

Stoen MJ, Andersen S, Rakaee M, Pedersen MI, Ingebriktsen LM, Donnem T, Lombardi APG, Kilvaer TK, Busund LR, Richardsen E (2021)
Overexpression of miR-20a-5p in Tumor Epithelium Is an Independent Negative Prognostic Indicator in Prostate Cancer-A Multi-Institutional Study
Cancers (Basel), 13 (16)
DOI 10.3390/cancers13164096, PubMed 34439249

Publications 2020

Kilvaer TK, Paulsen EE, Andersen S, Rakaee M, Bremnes RM, Busund LR, Donnem T (2020)
Digitally quantified CD8+ cells: the best candidate marker for an immune cell score in non-small cell lung cancer?
Carcinogenesis, 41 (12), 1671-1681
DOI 10.1093/carcin/bgaa105, PubMed 33035322

Publications 2019

Kilvaer TK, Rakaee M, Hellevik T, Vik J, Petris L, Donnem T, Strell C, Ostman A, Busund LR, Martinez-Zubiaurre I (2019)
Differential prognostic impact of platelet-derived growth factor receptor expression in NSCLC
Sci Rep, 9 (1), 10163
DOI 10.1038/s41598-019-46510-3, PubMed 31308421

Rakaee M, Busund LR, Jamaly S, Paulsen EE, Richardsen E, Andersen S, Al-Saad S, Bremnes RM, Donnem T, Kilvaer TK (2019)
Prognostic Value of Macrophage Phenotypes in Resectable Non-Small Cell Lung Cancer Assessed by Multiplex Immunohistochemistry
Neoplasia, 21 (3), 282-293
DOI 10.1016/j.neo.2019.01.005, PubMed 30743162

Richardsen E, Andersen S, Al-Saad S, Rakaee M, Nordby Y, Pedersen MI, Ness N, Ingebriktsen LM, Fassina A, Taskén KA, Mills IG, Donnem T, Bremnes RM, Busund LT (2019)
Low Expression of miR-424-3p is Highly Correlated with Clinical Failure in Prostate Cancer
Sci Rep, 9 (1), 10662
DOI 10.1038/s41598-019-47234-0, PubMed 31337863

Richardsen E, Andersen S, Melbø-Jørgensen C, Rakaee M, Ness N, Al-Saad S, Nordby Y, Pedersen MI, Dønnem T, Bremnes RM, Busund LT (2019)
MicroRNA 141 is associated to outcome and aggressive tumor characteristics in prostate cancer
Sci Rep, 9 (1), 386
DOI 10.1038/s41598-018-36854-7, PubMed 30674952

Publications 2018

Grindstad T, Richardsen E, Andersen S, Skjefstad K, Rakaee Khanehkenari M, Donnem T, Ness N, Nordby Y, Bremnes RM, Al-Saad S, Busund LT (2018)
Progesterone Receptors in Prostate Cancer: Progesterone receptor B is the isoform associated with disease progression
Sci Rep, 8 (1), 11358
DOI 10.1038/s41598-018-29520-5, PubMed 30054508

Kilvaer TK, Rakaee M, Hellevik T, Østman A, Strell C, Bremnes RM, Busund LT, Dønnem T, Martinez-Zubiaurre I (2018)
Tissue analyses reveal a potential immune-adjuvant function of FAP-1 positive fibroblasts in non-small cell lung cancer
PLoS One, 13 (2), e0192157
DOI 10.1371/journal.pone.0192157, PubMed 29415055

Rakaee M, Kilvaer TK, Dalen SM, Richardsen E, Paulsen EE, Hald SM, Al-Saad S, Andersen S, Donnem T, Bremnes RM, Busund LT (2018)
Evaluation of tumor-infiltrating lymphocytes using routine H&E slides predicts patient survival in resected non-small cell lung cancer
Hum Pathol, 79, 188-198
DOI 10.1016/j.humpath.2018.05.017, PubMed 29885403

Publications 2017

Al-Saad S, Richardsen E, Kilvaer TK, Donnem T, Andersen S, Khanehkenari M, Bremnes RM, Busund LT (2017)
The impact of MET, IGF-1, IGF1R expression and EGFR mutations on survival of patients with non-small-cell lung cancer
PLoS One, 12 (7), e0181527
DOI 10.1371/journal.pone.0181527, PubMed 28742836

Andersen S, Richardsen E, Rakaee M, Bertilsson H, Bremnes R, Børset M, Busund LT, Slørdahl T (2017)
Expression of phosphatase of regenerating liver (PRL)-3, is independently associated with biochemical failure, clinical failure and death in prostate cancer
PLoS One, 12 (11), e0189000
DOI 10.1371/journal.pone.0189000, PubMed 29190795

Hald SM, Rakaee M, Martinez I, Richardsen E, Al-Saad S, Paulsen EE, Blix ES, Kilvaer T, Andersen S, Busund LT, Bremnes RM, Donnem T (2017)
LAG-3 in Non-Small-cell Lung Cancer: Expression in Primary Tumors and Metastatic Lymph Nodes Is Associated With Improved Survival
Clin Lung Cancer, 19 (3), 249-259.e2
DOI 10.1016/j.cllc.2017.12.001, PubMed 29396238

Ness N, Andersen S, Khanehkenari MR, Nordbakken CV, Valkov A, Paulsen EE, Nordby Y, Bremnes RM, Donnem T, Busund LT, Richardsen E (2017)
The prognostic role of immune checkpoint markers programmed cell death protein 1 (PD-1) and programmed death ligand 1 (PD-L1) in a large, multicenter prostate cancer cohort
Oncotarget, 8 (16), 26789-26801
DOI 10.18632/oncotarget.15817, PubMed 28460462

Nordby Y, Richardsen E, Rakaee M, Ness N, Donnem T, Patel HR, Busund LT, Bremnes RM, Andersen S (2017)
High expression of PDGFR-β in prostate cancer stroma is independently associated with clinical and biochemical prostate cancer recurrence
Sci Rep, 7, 43378
DOI 10.1038/srep43378, PubMed 28233816

Paulsen EE, Kilvaer TK, Rakaee M, Richardsen E, Hald SM, Andersen S, Busund LT, Bremnes RM, Donnem T (2017)
CTLA-4 expression in the non-small cell lung cancer patient tumor microenvironment: diverging prognostic impact in primary tumors and lymph node metastases
Cancer Immunol Immunother, 66 (11), 1449-1461
DOI 10.1007/s00262-017-2039-2, PubMed 28707078

Richardsen E, Andersen S, Al-Saad S, Rakaee M, Nordby Y, Pedersen MI, Ness N, Grindstad T, Movik I, Dønnem T, Bremnes R, Busund LT (2017)
Evaluation of the proliferation marker Ki-67 in a large prostatectomy cohort
PLoS One, 12 (11), e0186852
DOI 10.1371/journal.pone.0186852, PubMed 29141018

Skjefstad K, Grindstad T, Rakaee Khanehkenari M, Richardsen E, Donnem T, Kilvaer T, Andersen S, Bremnes RM, Busund LT, Al-Saad S (2017)
Corrigendum to "Prognostic relevance of estrogen receptor α, β and aromatase expression in non-small cell lung cancer" [Steroids 113 (2016) 5-13]
Steroids, 130, 36-37
DOI 10.1016/j.steroids.2017.11.010, PubMed 29273210

Publications 2016

Bremnes RM, Busund LT, Kilvær TL, Andersen S, Richardsen E, Paulsen EE, Hald S, Khanehkenari MR, Cooper WA, Kao SC, Dønnem T (2016)
The Role of Tumor-Infiltrating Lymphocytes in Development, Progression, and Prognosis of Non-Small Cell Lung Cancer
J Thorac Oncol, 11 (6), 789-800
DOI 10.1016/j.jtho.2016.01.015, PubMed 26845192

Grindstad T, Skjefstad K, Andersen S, Ness N, Nordby Y, Al-Saad S, Fismen S, Donnem T, Khanehkenari MR, Busund LT, Bremnes RM, Richardsen E (2016)
Estrogen receptors α and β and aromatase as independent predictors for prostate cancer outcome
Sci Rep, 6, 33114
DOI 10.1038/srep33114, PubMed 27610593

Kilvaer TK, Paulsen EE, Khanehkenari MR, Al-Saad S, Johansen RM, Al-Shibli K, Bremnes RM, Busund LT, Donnem T (2016)
The presence of intraepithelial CD45RO+ cells in resected lymph nodes with metastases from NSCLC patients is an independent predictor of disease-specific survival
Br J Cancer, 114 (10), 1145-51
DOI 10.1038/bjc.2016.92, PubMed 27167450

Paulsen EE, Kilvaer TK, Khanehkenari MR, Al-Saad S, Hald SM, Andersen S, Richardsen E, Ness N, Busund LT, Bremnes RM, Donnem T (2016)
Assessing PDL-1 and PD-1 in Non-Small Cell Lung Cancer: A Novel Immunoscore Approach
Clin Lung Cancer, 18 (2), 220-233.e8
DOI 10.1016/j.cllc.2016.09.009, PubMed 27816392

Rakaee M, Busund LT, Paulsen EE, Richardsen E, Al-Saad S, Andersen S, Donnem T, Bremnes RM, Kilvaer TK (2016)
Prognostic effect of intratumoral neutrophils across histological subtypes of non-small cell lung cancer
Oncotarget, 7 (44), 72184-72196
DOI 10.18632/oncotarget.12360, PubMed 27708229

Skjefstad K, Grindstad T, Khanehkenari MR, Richardsen E, Donnem T, Kilvaer T, Andersen S, Bremnes RM, Busund LT, Al-Saad S (2016)
Prognostic relevance of estrogen receptor α, β and aromatase expression in non-small cell lung cancer
Steroids, 113, 5-13
DOI 10.1016/j.steroids.2016.05.008, PubMed 27234503

Publications 2015

Kilvaer TK, Khanehkenari MR, Hellevik T, Al-Saad S, Paulsen EE, Bremnes RM, Busund LT, Donnem T, Martinez IZ (2015)
Cancer Associated Fibroblasts in Stage I-IIIA NSCLC: Prognostic Impact and Their Correlations with Tumor Molecular Markers
PLoS One, 10 (8), e0134965
DOI 10.1371/journal.pone.0134965, PubMed 26252379

Paulsen EE, Kilvaer T, Khanehkenari MR, Maurseth RJ, Al-Saad S, Hald SM, Al-Shibli K, Andersen S, Richardsen E, Busund LT, Bremnes R, Donnem T (2015)
CD45RO(+) Memory T Lymphocytes--a Candidate Marker for TNM-Immunoscore in Squamous Non-Small Cell Lung Cancer
Neoplasia, 17 (11), 839-48
DOI 10.1016/j.neo.2015.11.004, PubMed 26678911

Publications 2012

Jamaly S, Khanehkenari MR, Rao R, Patil G, Thakur S, Ramaswamy P, Ajaikumar BS, Sahoo R (2012)
Relationship between p53 overexpression, human papillomavirus infection, and lifestyle in Indian patients with head and neck cancers
Tumour Biol, 33 (2), 543-50
DOI 10.1007/s13277-011-0295-x, PubMed 22231431