npj Precision Oncology

Article	Citations
Development and testing of a polygenic risk score for breast cancer aggressiveness	218
Retraction Note: Birinapant sensitizes platinum-resistant carcinomas with high levels of cIAP to carboplatin therapy	107
BRAF v600E–mutant cancers treated with vemurafenib alone or in combination with everolimus, sorafenib, or crizotinib or with paclitaxel and carboplatin (VEM-PLUS) study	101
Grading of lung adenocarcinomas with simultaneous segmentation by artificial intelligence (GLASS-AI)	95
Author Correction: An automated deep learning pipeline for EMVI classification and response prediction of rectal cancer using baseline MRI: a multi-centre study	94
Improved prediction of MAPKi response duration in melanoma patients using genomic data and machine learning	94
Patient-level proteomic network prediction by explainable artificial intelligence	92
Developing survival prediction models in colorectal cancer using epigenome-wide DNA methylation data from whole blood	90
Analyses of canine cancer mutations and treatment outcomes using real-world clinico-genomics data of 2119 dogs	84
Genome-wide analyses reveals an association between invasive urothelial carcinoma in the Shetland sheepdog and NIPAL1	74
Sub-regional radiomics combining multichannel 2-dimensional or 3-dimensional deep learning for predicting neoadjuvant chemo-immunotherapy response in esophageal squamous cell carcinoma: a multicenter	74
An automated deep learning pipeline for EMVI classification and response prediction of rectal cancer using baseline MRI: a multi-centre study	61
Circulating tumor DNA in ALK-positive anaplastic large cell lymphoma: a proof-of-concept study	59
Assessment of TROP2, CEACAM5 and DLL3 in metastatic prostate cancer: Expression landscape and molecular correlates	57
Tumor break load quantitates structural variant-associated genomic instability with biological and clinical relevance across cancers	54
Constitutional mismatch repair deficiency mimicking Lynch syndrome is associated with hypomorphic mismatch repair gene variants	53
Imaging and AI based chromatin biomarkers for diagnosis and therapy evaluation from liquid biopsies	51
The dynamic immune behavior of primary and metastatic ovarian carcinoma	50
Complement activation in tumor microenvironment after neoadjuvant therapy and its impact on pancreatic cancer outcomes	49
Interferon signaling and ferroptosis in tumor immunology and therapy	49
Mucin-1: a promising pan-cancer therapeutic target	49
A protein-encoding CCDC7 circular RNA inhibits the progression of prostate cancer by up-regulating FLRT3	48
Exosome- transported FER inhibitor suppresses progression of diffuse large B-cell lymphoma via regulating AJUBA/Hippo axis	47
Co-targeting KRAS G12C and EGFR reduces both mutant and wild-type RAS-GTP	44
Barriers and opportunities in pancreatic cancer immunotherapy	44

A perspective on life-cycle health technology assessment and real-world evidence for precision oncology in Canada	44
Histological transformation to gliosarcoma with combined BRAF/MEK inhibition in BRAF V600E mutated glioblastoma	43
Enhanced efficacy of ipilimumab plus nivolumab in angiogenic subtypes of metastatic clear-cell renal cell carcinoma	43
Real-world experience of Molecular Tumour Boards for clinical decision-making for cancer patients	43
Erigoster B targeting DECR1 induces ferroptosis of breast cancer cells via promoting phosphatidylcholine/arachidonic acid metabolism	43
Genomic and transcriptomic analyses identify distinctive features of triple-negative inflammatory breast cancer	41
TRIM65 regulates glucose metabolic reprogramming to promote glioma cell proliferation via ubiquitination and degradation of AMPK	40
Machine learning model for predicting tertiary lymphoid structures and treatment response in triple-negative breast cancer	40
A universal immunohistochemistry analyzer for generalizing AI-driven assessment of immunohistochemistry across immunostains and cancer types	39
Targeting Nrf2/PHKG2 axis to enhance radiosensitivity in NSCLC	39
Establishing predictive machine learning models for drug responses in patient derived cell culture	39
Baseline biomarkers of efficacy and on-treatment immune-profile changes associated with bempegaldesleukin plus nivolumab	37
Stage-dependent spatial distribution and prognostic value of CD8+ tissue-resident memory T cells in NSCLC	37
Multiregional transcriptomic profiling provides improved prognostic insight in localized non-small cell lung cancer	36
m6A reader IGF2BP2-stabilized lncRNA LHX1-DT inhibits renal cell carcinoma (RCC) cell proliferation and invasion by sponging miR-590-5p	36
PD-1 blockade potentiates neoadjuvant chemotherapy in NSCLC via increasing CD127+ and KLRG1+ CD8 T cells	36
Self-supervised attention-based deep learning for pan-cancer mutation prediction from histopathology	35
Relationship among DDR gene mutations, TMB and PD-L1 in solid tumour genomes identified using clinically actionable biomarker assays	35
An international multi-institutional validation study of the algorithm for prostate cancer detection and Gleason grading	35
Discovery of prognostic lncRNAs in colorectal cancer using spatial transcriptomics	33
First-in-human prospective trial of sonobiopsy in high-grade glioma patients using neuronavigation-guided focused ultrasound	33
Single-cell landscape of bronchoalveolar immune cells in patients with immune checkpoint inhibitor-related pneumonitis	32
Multi-omics machine learning to study host-microbiome interactions in early-onset colorectal cancer	32
Pan-cancer molecular tumor board experience with biomarker-driven precision immunotherapy	32
Author Correction: Imaging and AI based chromatin biomarkers for diagnosis and therapy evaluation from liquid biopsies	31
Deciphering associations between three RNA splicing-related genetic variants and lung cancer risk	31
Progress in personalized immunotherapy for patients with brain metastasis	31
AI-driven eyelid tumor classification in ocular oncology using proteomic data	31
Prediction of homologous recombination deficiency identifies colorectal tumors sensitive to PARP inhibition	29
Selpercatinib combination with the mitochondria-targeted antioxidant MitoQ effectively suppresses RET–mutant thyroid cancer	29
In-depth inference of transcriptional regulatory networks reveals NPM1 as a therapeutic ribosomal regulator in MYC-amplified medulloblastoma	29
Tumor fraction-based prognostic tool for cancer patients referred to early phase clinical trials	28
The SMARCA4R1157W mutation facilitates chromatin remodeling and confers PRMT1/SMARCA4 inhibitors sensitivity in colorectal cancer	28
Compound heterozygous MSH3 germline variants and associated tumor somatic DNA mismatch repair dysfunction	28
Mediator kinase inhibition impedes transcriptional plasticity and prevents resistance to ERK/MAPK-targeted therapy in KRAS-mutant cancers	28
ML-based sequential analysis to assist selection between VMP and RD for newly diagnosed multiple myeloma	27
Novel molecular subtypes of METex14 non-small cell lung cancer with distinct biological and clinical significance	27
Leveraging patient derived models of FGFR2 fusion positive intrahepatic cholangiocarcinoma to identify synergistic therapies	27
HER3 targeting augments the efficacy of panobinostat in claudin-low triple-negative breast cancer cells	27
Machine learning algorithms for predicting glioma patient prognosis based on CD163+FPR3+ macrophage signature	27
A multi-cancer early detection blood test using machine learning detects early-stage cancers lacking USPSTF-recommended screening	26
A complex phylogeny of lineage plasticity in metastatic castration resistant prostate cancer	26
MDM2 inhibition is associated with the emergence of TP53-altered clonal hematopoiesis	26
ChemoID-guided therapy improves objective response rate in recurrent platinum-resistant ovarian cancer randomized clinical trial	26
Potential of pre-diagnostic metabolomics for colorectal cancer risk assessment or early detection	25
Efficacy of PARP inhibitor therapy after targeted BRAF/MEK failure in advanced melanoma	25
Multi-output prediction of dose–response curves enables drug repositioning and biomarker discovery	25
Augmented reality microscopy to bridge trust between AI and pathologists	25
Activation of CD44/PAK1/AKT signaling promotes resistance to FGFR1 inhibition in squamous-cell lung cancer	24
CNTNAP4 signaling regulates osteosarcoma disease progression	24

Deep learning-based quantification of eosinophils and lymphocytes shows complementary prognostic effects in colorectal cancer patients	24
Cancer-related cells and oncosomes in the liquid biopsy of pancreatic cancer patients undergoing surgery	24
A multimodal fusion system predicting survival benefits of immune checkpoint inhibitors in unresectable hepatocellular carcinoma	24
An analysis of research biopsy core variability from over 5000 prospectively collected core samples	24
Homologous recombination deficiency signatures in gastrointestinal and thoracic cancers correlate with platinum therapy duration	23
Unlocking the potential of TIGIT in enhancing therapeutic strategies for acute myeloid leukemia through combined azacitidine therapy	23
Perfusion-based ex vivo culture of frozen ovarian cancer tissues with preserved tumor microenvironment	23
Colorectal cancer risk stratification on histological slides based on survival curves predicted by deep learning	23
Predicting ROS1 and ALK fusions in NSCLC from H&E slides with a two-step vision transformer approach	22
Role of large language models in the multidisciplinary decision-making process for patients with renal cell carcinoma: a pilot experience	22
A patient-designed tissue-engineered model of the infiltrative glioblastoma microenvironment	22
Artificial intelligence-based epigenomic, transcriptomic and histologic signatures of tobacco use in oral squamous cell carcinoma	22
Plasma proteomic biomarkers predict therapeutic responses in advanced biliary tract cancer patients receiving Camrelizumab plus the GEMOX treatment	22
Artificial intelligence-based assessment of PD-L1 expression in diffuse large B cell lymphoma	22
ALK fusions in the pan-cancer setting: another tumor-agnostic target?	21
Personalized prediction of anticancer potential of non-oncology drugs through learning from genome derived molecular pathways	21
Author Correction: A targetable OSGIN1–AMPK–SLC2A3 axis controls the vulnerability of ovarian cancer to ferroptosis	21
Complete morphologic response to gilteritinib in ALK-rearranged acute myeloid leukemia	21
LINE1 insertion into the NACC2 locus disrupts the HDM2 axis and activates lung oncogenic signaling	21
Potential utility of risk stratification for multicancer screening with liquid biopsy tests	21
PUM1-TRAF3 fusion protein activates non-canonical NF-κB signaling via rescued NIK in biliary tract cancer	21
Ligand-receptor interactions combined with histopathology for improved prognostic modeling in HPV-negative head and neck squamous cell carcinoma	21
Chemokine expression predicts T cell-inflammation and improved survival with checkpoint inhibition across solid cancers	20
Genetic and oncogenic features of RASGRF fusions	20
Striking efficacy of a vaccine targeting TOP2A for triple-negative breast cancer immunoprevention	20
Germline pathogenic variants in DNA repair pathways: a key feature in a significant subset of translocation-associated sarcomas	20
Functional cure with single agent olutasidenib in relapsed IDH1/NPM1 co-mutated AML	20
Multicenter radio-multiomic analysis for predicting breast cancer outcome and unravelling imaging-biological connection	20
Whole-genome analysis of an aggressive metastatic pancreatic solid pseudopapillary neoplasm	20
Development and interpretation of a multimodal predictive model for prognosis of gastrointestinal stromal tumor	20
Transcriptional profiling clarifies a program of enzalutamide extreme non-response in lethal prostate cancer	20
High TGF-β signature predicts immunotherapy resistance in gynecologic cancer patients treated with immune checkpoint inhibition	20
Tackling FGFR3-driven bladder cancer with a promising synergistic FGFR/HDAC targeted therapy	19
Tertiary lymphoid structures potentially promote immune checkpoint inhibitor response in SMARCB1-deficient medullary renal cell carcinoma	19
Novel paediatric case of a spinal high-grade astrocytoma with piloid features in a patient with Noonan Syndrome	19
Predicting survival in prospective clinical trials using weakly-supervised QSP	19
Use of PSMA PET/CT to detect prostate cancer metastatic to a preexisting thyroid nodule	19
Multi-omics analyses reveal interactions between GREM1+ fibroblasts and SPP1+ macrophages in gastric cancer	18
Progress and challenges of artificial intelligence in lung cancer clinical translation	18
Development of potent antibody drug conjugates against ICAM1+ cancer cells in preclinical models of cholangiocarcinoma	18
Complete response to fifth-line anti-PD-1 rechallenge in fumarate hydratase-mutated papillary renal cell carcinoma	18
HDAC6 facilitates LUAD progression by inducing EMT and enhancing macrophage polarization towards the M2 phenotype	18
The drug efficacy testing in 3D cultures platform identifies effective drugs for ovarian cancer patients	17
Design of self-assembled micelles based on natural dual-targeting strategies and evaluation of their anti-liver cancer effects as drug delivery systems	17
Exceptional response to the ATR inhibitor, camonsertib, in a patient with ALT+ metastatic melanoma	17
Evaluating cell culture reliability in pediatric brain tumor primary cells through DNA methylation profiling	17
Imaging immunity in patients with cancer using positron emission tomography	17
Real life outcome analysis of breast cancer brain metastases treated with Trastuzumab Deruxtecan	17
NCT/DKFZ MASTER handbook of interpreting whole-genome, transcriptome, and methylome data for precision oncology	17
Author Correction: Predicting the tumor microenvironment composition and immunotherapy response in non-small cell lung cancer from digital histopathology images	17
Opportunities and challenges for patient-derived models of brain tumors in functional precision medicine	17
Single-cell transcriptome sequencing reveals spatial distribution of IL34+ cancer-associated fibroblasts in hepatocellular carcinoma tumor microenvironment	16
Biallelic EPCAM deletions induce tissue-specific DNA repair deficiency and cancer predisposition	16
Comprehensive genetic profiling and molecularly guided treatment for patients with primary CNS tumors	16
Multimodal spatial proteomic profiling in acute myeloid leukemia	16
A review of machine learning methods for cancer characterization from microbiome data	16
Element-specific estimation of background mutation rates in whole cancer genomes through transfer learning	16
A destabilizing Y891D mutation in activated EGFR impairs sensitivity to kinase inhibition	16
Fast, accurate, and racially unbiased pan-cancer tumor-only variant calling with tabular machine learning	16
Impact of TP53 mutations in Triple Negative Breast Cancer	16
Integrative molecular analyses define correlates of high B7-H3 expression in metastatic castrate-resistant prostate cancer	16
An appraisal of genetic testing for prostate cancer susceptibility	16
Multi-omics analysis reveals NNMT as a master metabolic regulator of metastasis in esophageal squamous cell carcinoma	16
Targeting extracellular and juxtamembrane FGFR2 mutations in chemotherapy-refractory cholangiocarcinoma	15
Precision immuno-oncology approach for four malignant tumors in siblings with constitutional mismatch repair deficiency syndrome	15
Spatial tumor immune microenvironment phenotypes in ovarian cancer	15
Integrative whole slide image and spatial transcriptomics analysis with QuST and QuPath	15
Plasma epigenomic profiling reveals treatment-emergent squamous transformation in prostate cancer	15
A comprehensive analysis of minimally differentially methylated regions common to pediatric and adult solid tumors	15
A phase II trial of mTORC1/2 inhibition in STK11 deficient non small cell lung cancer	15
Multi-omics analysis deciphers intercellular communication regulating oxidative stress to promote oral squamous cell carcinoma progression	15
Secrets of DNA-PKcs beyond DNA repair	15
Author Correction: An interpretable machine learning system for colorectal cancer diagnosis from pathology slides	14
Methylation cytometric pretreatment blood immune profiles with tumor mutation burden as prognostic indicators for survival outcomes in head and neck cancer patients on anti-PD-1 therapy	14
DNA methylation at quantitative trait loci (mQTLs) varies with cell type and nonheritable factors and may improve breast cancer risk assessment	14
Single-cell spatial architectures associated with clinical outcome in head and neck squamous cell carcinoma	14
Single-cell analysis of gastric pre-cancerous and cancer lesions reveals cell lineage diversity and intratumoral heterogeneity	14
Integrating histopathology and transcriptomics for spatial tumor microenvironment profiling in a melanoma case study	14
High risk clear cell renal cell carcinoma microenvironments contain protumour immunophenotypes lacking specific immune checkpoints	14
Towards precision radiation oncology: endocrine therapy response as a biomarker for personalization of breast radiotherapy	14

Pre-radiotherapy ctDNA liquid biopsy for risk stratification of oligometastatic non-small cell lung cancer	14
Deep learning-based detection and semi-quantitative model for spread through air spaces (STAS) in lung adenocarcinoma	14
Collision of germline POLE and PMS2 variants in a young patient treated with immune checkpoint inhibitors	14
Author Correction: Naltriben promotes tumor growth by activating the TRPM7-mediated development of the anti-inflammatory M2 phenotype	14
Prediction and analysis of tumor infiltrating lymphocytes across 28 cancers by TILScout using deep learning	14
Defining the extracellular matrix for targeted immunotherapy in adult and pediatric brain cancer	14
Integration of pre-treatment computational radiomics, deep radiomics, and transcriptomics enhances soft-tissue sarcoma patient prognosis	13
Accurate prediction of disease-free and overall survival in non-small cell lung cancer using patient-level multimodal weakly supervised learning	13
Trans-ancestry transcriptome-wide association and functional studies to uncover novel susceptibility genes and therapeutic targets for colorectal cancer	13
All models are wrong and yours are useless: making clinical prediction models impactful for patients	13
HAPIR: a refined Hallmark gene set-based machine learning approach for predicting immunotherapy response in cancer patients	13
Upregulation of POLE and proficient DNA repair are features of CIC::DUX4 sarcomas	13
Latent class analysis-derived classification improves the cancer-specific death stratification of molecular subtyping in colorectal cancer	13
Survival-inferred fragility of statistical significance in phase III oncology trials	13
Complete response to alectinib in ALK-fusion metastatic salivary ductal carcinoma	13
Circulating tumor DNA is readily detectable among Ghanaian breast cancer patients supporting non-invasive cancer genomic studies in Africa	13
Genomic landscape of liquid biopsy mutations in TP53 and DNA damage genes in cancer patients	12
Adaptive Darwinian off-target resistance mechanisms to selective RET inhibition in RET driven cancer	12
Identification of novel prognostic and predictive biomarkers in salivary duct carcinoma via comprehensive molecular profiling	12
Comprehensive analysis of targetable mutations and tumor microenvironment in urachal cancer	12
Bayesian risk prediction model for colorectal cancer mortality through integration of clinicopathologic and genomic data	12
A multi-modal deep learning model for prediction of Ki-67 for meningiomas using pretreatment MR images	12
Molecular characterization of low-grade serous ovarian carcinoma identifies genomic aberrations according to hormone receptor expression	12
Prediction of early-stage melanoma recurrence using clinical and histopathologic features	12
Neoadjuvant therapy-induced immune dynamics and myeloid-associated resistance in advanced head and neck cancer	12
Emerging innovations in theranostics for pancreatic neuroendocrine tumors	12
Revealing neuroendocrine transformation in gynecological cancers through genomic analysis	12
A multiparameter liquid biopsy approach allows to track melanoma dynamics and identify early treatment resistance	12
Development of a deep learning model for cancer diagnosis by inspecting cell-free DNA end-motifs	12
Illuminating the future of precision cancer surgery with fluorescence imaging and artificial intelligence convergence	12
Locoregional tumor burden and risk of mortality in metastatic breast cancer	12
Cell graph neural networks enable the precise prediction of patient survival in gastric cancer	12
A morphometric signature to identify ductal carcinoma in situ with a low risk of progression	12
Challenges and opportunities associated with the MD Anderson IMPACT2 randomized study in precision oncology	12
Proteogenomic analysis of enriched HGSOC tumor epithelium identifies prognostic signatures and therapeutic vulnerabilities	12
MC1R signaling through the cAMP-CREB/ATF-1 and ERK-NFκB pathways accelerates G1/S transition promoting breast cancer progression	12
Immunologic correlates in a CIC::DUX4 fusion-positive sarcoma responsive to dual immune checkpoint blockade	11
Pharmacogenomic discovery of genetically targeted cancer therapies optimized against clinical outcomes	11
Role of GPX3+ astrocytes in breast cancer brain metastasis activated by circulating tumor cell exosomes	11
Molecular landscape of ERBB2 alterations in 3000 advanced NSCLC patients	11
Biopsy image-based deep learning for predicting pathologic response to neoadjuvant chemotherapy in patients with NSCLC	11
Multi-omics analysis unveils immunosuppressive microenvironment in the occurrence and development of multiple pulmonary lung cancers	11
Applying a multi-task and multi-instance framework to predict axillary lymph node metastases in breast cancer	11
Proximity of immune and tumor cells underlies response to BRAF/MEK-targeted therapies in metastatic melanoma patients	11
ALDH1A1 promotes PARP inhibitor resistance by enhancing retinoic acid receptor-mediated DNA polymerase θ expression	11
Diagnostic and prognostic potential of cell-free RNAs in cerebrospinal fluid and plasma for brain tumors	11
RNF4 mediated degradation of PDHA1 promotes colorectal cancer metabolism and metastasis	11
Multimodal analysis suggests differential immuno-metabolic crosstalk in lung squamous cell carcinoma and adenocarcinoma	11
A single-cell based precision medicine approach using glioblastoma patient-specific models	11