npj Precision Oncology

Article	Citations
Targeting the epichaperome as an effective precision medicine approach in a novel PML-SYK fusion acute myeloid leukemia	147
Developing survival prediction models in colorectal cancer using epigenome-wide DNA methylation data from whole blood	116
Development and testing of a polygenic risk score for breast cancer aggressiveness	94
Co-targeting KRAS G12C and EGFR reduces both mutant and wild-type RAS-GTP	91
Grading of lung adenocarcinomas with simultaneous segmentation by artificial intelligence (GLASS-AI)	84
An automated deep learning pipeline for EMVI classification and response prediction of rectal cancer using baseline MRI: a multi-centre study	79
Author Correction: An automated deep learning pipeline for EMVI classification and response prediction of rectal cancer using baseline MRI: a multi-centre study	76
Retraction Note: Birinapant sensitizes platinum-resistant carcinomas with high levels of cIAP to carboplatin therapy	74
Complement activation in tumor microenvironment after neoadjuvant therapy and its impact on pancreatic cancer outcomes	74
A protein-encoding CCDC7 circular RNA inhibits the progression of prostate cancer by up-regulating FLRT3	70
Constitutional mismatch repair deficiency mimicking Lynch syndrome is associated with hypomorphic mismatch repair gene variants	66
BRAF v600E–mutant cancers treated with vemurafenib alone or in combination with everolimus, sorafenib, or crizotinib or with paclitaxel and carboplatin (VEM-PLUS) study	66
Genome-wide analyses reveals an association between invasive urothelial carcinoma in the Shetland sheepdog and NIPAL1	65
Patient-level proteomic network prediction by explainable artificial intelligence	63
Analyses of canine cancer mutations and treatment outcomes using real-world clinico-genomics data of 2119 dogs	62
A perspective on life-cycle health technology assessment and real-world evidence for precision oncology in Canada	56
The dynamic immune behavior of primary and metastatic ovarian carcinoma	54
Imaging and AI based chromatin biomarkers for diagnosis and therapy evaluation from liquid biopsies	52
Barriers and opportunities in pancreatic cancer immunotherapy	50
Interferon signaling and ferroptosis in tumor immunology and therapy	50
Multiregional transcriptomic profiling provides improved prognostic insight in localized non-small cell lung cancer	47
Assessment of TROP2, CEACAM5 and DLL3 in metastatic prostate cancer: Expression landscape and molecular correlates	47
Histological transformation to gliosarcoma with combined BRAF/MEK inhibition in BRAF V600E mutated glioblastoma	46
Real-world experience of Molecular Tumour Boards for clinical decision-making for cancer patients	46
An international multi-institutional validation study of the algorithm for prostate cancer detection and Gleason grading	45

PD-1 blockade potentiates neoadjuvant chemotherapy in NSCLC via increasing CD127+ and KLRG1+ CD8 T cells	45
A subset of lung cancer cases shows robust signs of homologous recombination deficiency associated genomic mutational signatures	45
Pan-cancer molecular tumor board experience with biomarker-driven precision immunotherapy	42
Single-cell landscape of bronchoalveolar immune cells in patients with immune checkpoint inhibitor-related pneumonitis	39
Multi-omics machine learning to study host-microbiome interactions in early-onset colorectal cancer	39
Genomic and transcriptomic analyses identify distinctive features of triple-negative inflammatory breast cancer	38
Targeting Nrf2/PHKG2 axis to enhance radiosensitivity in NSCLC	38
A universal immunohistochemistry analyzer for generalizing AI-driven assessment of immunohistochemistry across immunostains and cancer types	38
Baseline biomarkers of efficacy and on-treatment immune-profile changes associated with bempegaldesleukin plus nivolumab	38
Relationship among DDR gene mutations, TMB and PD-L1 in solid tumour genomes identified using clinically actionable biomarker assays	37
Stage-dependent spatial distribution and prognostic value of CD8+ tissue-resident memory T cells in NSCLC	37
Discovery of prognostic lncRNAs in colorectal cancer using spatial transcriptomics	37
Deciphering associations between three RNA splicing-related genetic variants and lung cancer risk	36
Quantitative MRI-based radiomics for noninvasively predicting molecular subtypes and survival in glioma patients	36
Leveraging patient derived models of FGFR2 fusion positive intrahepatic cholangiocarcinoma to identify synergistic therapies	36
Self-supervised attention-based deep learning for pan-cancer mutation prediction from histopathology	36
Prediction of homologous recombination deficiency identifies colorectal tumors sensitive to PARP inhibition	36
First-in-human prospective trial of sonobiopsy in high-grade glioma patients using neuronavigation-guided focused ultrasound	36
AI-driven eyelid tumor classification in ocular oncology using proteomic data	35
ML-based sequential analysis to assist selection between VMP and RD for newly diagnosed multiple myeloma	34
Tumor fraction-based prognostic tool for cancer patients referred to early phase clinical trials	34
Mediator kinase inhibition impedes transcriptional plasticity and prevents resistance to ERK/MAPK-targeted therapy in KRAS-mutant cancers	31
Selpercatinib combination with the mitochondria-targeted antioxidant MitoQ effectively suppresses RET–mutant thyroid cancer	31
Novel molecular subtypes of METex14 non-small cell lung cancer with distinct biological and clinical significance	31
HER3 targeting augments the efficacy of panobinostat in claudin-low triple-negative breast cancer cells	30
Compound heterozygous MSH3 germline variants and associated tumor somatic DNA mismatch repair dysfunction	30
Progress in personalized immunotherapy for patients with brain metastasis	30
Preoperative clinical and tumor genomic features associated with pathologic lymph node metastasis in clinical stage I and II lung adenocarcinoma	30
Pentraxin 3 is a stromally-derived biomarker for detection of pancreatic ductal adenocarcinoma	29
The SMARCA4R1157W mutation facilitates chromatin remodeling and confers PRMT1/SMARCA4 inhibitors sensitivity in colorectal cancer	28
Machine learning algorithms for predicting glioma patient prognosis based on CD163+FPR3+ macrophage signature	28
Author Correction: Imaging and AI based chromatin biomarkers for diagnosis and therapy evaluation from liquid biopsies	28
In-depth inference of transcriptional regulatory networks reveals NPM1 as a therapeutic ribosomal regulator in MYC-amplified medulloblastoma	28
Comprehensive functional evaluation of variants of fibroblast growth factor receptor genes in cancer	27
ChemoID-guided therapy improves objective response rate in recurrent platinum-resistant ovarian cancer randomized clinical trial	26
A complex phylogeny of lineage plasticity in metastatic castration resistant prostate cancer	26
Efficacy of PARP inhibitor therapy after targeted BRAF/MEK failure in advanced melanoma	25
Artificial intelligence-based assessment of PD-L1 expression in diffuse large B cell lymphoma	25
An analysis of research biopsy core variability from over 5000 prospectively collected core samples	25
CNTNAP4 signaling regulates osteosarcoma disease progression	25
Multi-output prediction of dose–response curves enables drug repositioning and biomarker discovery	24
MDM2 inhibition is associated with the emergence of TP53-altered clonal hematopoiesis	24
Activation of CD44/PAK1/AKT signaling promotes resistance to FGFR1 inhibition in squamous-cell lung cancer	24
Plasma proteomic biomarkers predict therapeutic responses in advanced biliary tract cancer patients receiving Camrelizumab plus the GEMOX treatment	24
Potential of pre-diagnostic metabolomics for colorectal cancer risk assessment or early detection	24
Homologous recombination deficiency signatures in gastrointestinal and thoracic cancers correlate with platinum therapy duration	23
Cancer-related cells and oncosomes in the liquid biopsy of pancreatic cancer patients undergoing surgery	23
Colorectal cancer risk stratification on histological slides based on survival curves predicted by deep learning	23
A multi-cancer early detection blood test using machine learning detects early-stage cancers lacking USPSTF-recommended screening	23
ALK fusions in the pan-cancer setting: another tumor-agnostic target?	23

Artificial intelligence-based epigenomic, transcriptomic and histologic signatures of tobacco use in oral squamous cell carcinoma	23
Ligand-receptor interactions combined with histopathology for improved prognostic modeling in HPV-negative head and neck squamous cell carcinoma	22
Overcoming resistance to BRAFV600E inhibition in melanoma by deciphering and targeting personalized protein network alterations	22
Deep learning for end-to-end kidney cancer diagnosis on multi-phase abdominal computed tomography	22
A patient-designed tissue-engineered model of the infiltrative glioblastoma microenvironment	22
PUM1-TRAF3 fusion protein activates non-canonical NF-κB signaling via rescued NIK in biliary tract cancer	22
Chemokine expression predicts T cell-inflammation and improved survival with checkpoint inhibition across solid cancers	22
Author Correction: A targetable OSGIN1–AMPK–SLC2A3 axis controls the vulnerability of ovarian cancer to ferroptosis	22
Complete morphologic response to gilteritinib in ALK-rearranged acute myeloid leukemia	22
Personalized prediction of anticancer potential of non-oncology drugs through learning from genome derived molecular pathways	22
Tertiary lymphoid structures potentially promote immune checkpoint inhibitor response in SMARCB1-deficient medullary renal cell carcinoma	21
Striking efficacy of a vaccine targeting TOP2A for triple-negative breast cancer immunoprevention	21
Multicenter radio-multiomic analysis for predicting breast cancer outcome and unravelling imaging-biological connection	21
Novel paediatric case of a spinal high-grade astrocytoma with piloid features in a patient with Noonan Syndrome	21
Complete response to fifth-line anti-PD-1 rechallenge in fumarate hydratase-mutated papillary renal cell carcinoma	21
High TGF-β signature predicts immunotherapy resistance in gynecologic cancer patients treated with immune checkpoint inhibition	21
Development and interpretation of a multimodal predictive model for prognosis of gastrointestinal stromal tumor	21
Imaging immunity in patients with cancer using positron emission tomography	21
Use of PSMA PET/CT to detect prostate cancer metastatic to a preexisting thyroid nodule	21
Design of self-assembled micelles based on natural dual-targeting strategies and evaluation of their anti-liver cancer effects as drug delivery systems	21
Potential utility of risk stratification for multicancer screening with liquid biopsy tests	21
Whole-genome analysis of an aggressive metastatic pancreatic solid pseudopapillary neoplasm	21
Tackling FGFR3-driven bladder cancer with a promising synergistic FGFR/HDAC targeted therapy	21
Predicting survival in prospective clinical trials using weakly-supervised QSP	20
Author Correction: Predicting the tumor microenvironment composition and immunotherapy response in non-small cell lung cancer from digital histopathology images	20
Real life outcome analysis of breast cancer brain metastases treated with Trastuzumab Deruxtecan	20
Evaluating cell culture reliability in pediatric brain tumor primary cells through DNA methylation profiling	20
Opportunities and challenges for patient-derived models of brain tumors in functional precision medicine	20
Development of potent antibody drug conjugates against ICAM1+ cancer cells in preclinical models of cholangiocarcinoma	19
Multi-omics analysis deciphers intercellular communication regulating oxidative stress to promote oral squamous cell carcinoma progression	19
Impact of TP53 mutations in Triple Negative Breast Cancer	19
A review of machine learning methods for cancer characterization from microbiome data	19
Single-cell spatial architectures associated with clinical outcome in head and neck squamous cell carcinoma	19
NCT/DKFZ MASTER handbook of interpreting whole-genome, transcriptome, and methylome data for precision oncology	19
The drug efficacy testing in 3D cultures platform identifies effective drugs for ovarian cancer patients	19
A phase II trial of mTORC1/2 inhibition in STK11 deficient non small cell lung cancer	19
Deep learning-based detection and semi-quantitative model for spread through air spaces (STAS) in lung adenocarcinoma	18
Multi-omics analysis reveals NNMT as a master metabolic regulator of metastasis in esophageal squamous cell carcinoma	18
Fast, accurate, and racially unbiased pan-cancer tumor-only variant calling with tabular machine learning	18
Biallelic EPCAM deletions induce tissue-specific DNA repair deficiency and cancer predisposition	18
Element-specific estimation of background mutation rates in whole cancer genomes through transfer learning	18
Towards precision radiation oncology: endocrine therapy response as a biomarker for personalization of breast radiotherapy	18
Prediction and analysis of tumor infiltrating lymphocytes across 28 cancers by TILScout using deep learning	17
Spatial tumor immune microenvironment phenotypes in ovarian cancer	17
DNA methylation at quantitative trait loci (mQTLs) varies with cell type and nonheritable factors and may improve breast cancer risk assessment	17
Targeting extracellular and juxtamembrane FGFR2 mutations in chemotherapy-refractory cholangiocarcinoma	17
Integrative molecular analyses define correlates of high B7-H3 expression in metastatic castrate-resistant prostate cancer	17
Comprehensive genetic profiling and molecularly guided treatment for patients with primary CNS tumors	17
Integrative whole slide image and spatial transcriptomics analysis with QuST and QuPath	17
A destabilizing Y891D mutation in activated EGFR impairs sensitivity to kinase inhibition	17
Single-cell analysis of gastric pre-cancerous and cancer lesions reveals cell lineage diversity and intratumoral heterogeneity	16
An appraisal of genetic testing for prostate cancer susceptibility	16
Precision immuno-oncology approach for four malignant tumors in siblings with constitutional mismatch repair deficiency syndrome	16
Pre-radiotherapy ctDNA liquid biopsy for risk stratification of oligometastatic non-small cell lung cancer	16
A comprehensive analysis of minimally differentially methylated regions common to pediatric and adult solid tumors	16
Author Correction: Naltriben promotes tumor growth by activating the TRPM7-mediated development of the anti-inflammatory M2 phenotype	16
Secrets of DNA-PKcs beyond DNA repair	16
Single-cell transcriptome sequencing reveals spatial distribution of IL34+ cancer-associated fibroblasts in hepatocellular carcinoma tumor microenvironment	16
Complete response to alectinib in ALK-fusion metastatic salivary ductal carcinoma	15
Integration of pre-treatment computational radiomics, deep radiomics, and transcriptomics enhances soft-tissue sarcoma patient prognosis	15
Integrating histopathology and transcriptomics for spatial tumor microenvironment profiling in a melanoma case study	15
Author Correction: An interpretable machine learning system for colorectal cancer diagnosis from pathology slides	15
Circulating tumor DNA is readily detectable among Ghanaian breast cancer patients supporting non-invasive cancer genomic studies in Africa	15
Collision of germline POLE and PMS2 variants in a young patient treated with immune checkpoint inhibitors	15
High risk clear cell renal cell carcinoma microenvironments contain protumour immunophenotypes lacking specific immune checkpoints	15
Adaptive Darwinian off-target resistance mechanisms to selective RET inhibition in RET driven cancer	14
Trans-ancestry transcriptome-wide association and functional studies to uncover novel susceptibility genes and therapeutic targets for colorectal cancer	14
Identification of novel prognostic and predictive biomarkers in salivary duct carcinoma via comprehensive molecular profiling	14
Latent class analysis-derived classification improves the cancer-specific death stratification of molecular subtyping in colorectal cancer	14
Next-generation sequencing revealed recurrent ZFPM1 mutations in encapsulated papillary carcinoma of the breast	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
Cell graph neural networks enable the precise prediction of patient survival in gastric cancer	14
Locoregional tumor burden and risk of mortality in metastatic breast cancer	14
Prediction of early-stage melanoma recurrence using clinical and histopathologic features	14
All models are wrong and yours are useless: making clinical prediction models impactful for patients	14
Genomic landscape of liquid biopsy mutations in TP53 and DNA damage genes in cancer patients	14
TCERG1L allelic variation is associated with cisplatin-induced hearing loss in childhood cancer, a PanCareLIFE study	14
Challenges and opportunities associated with the MD Anderson IMPACT2 randomized study in precision oncology	13
Comprehensive analysis of targetable mutations and tumor microenvironment in urachal cancer	13
Proteogenomic analysis of enriched HGSOC tumor epithelium identifies prognostic signatures and therapeutic vulnerabilities	13

Comprehensive analysis of angiogenesis pattern and related immune landscape for individual treatment in osteosarcoma	13
A multi-modal deep learning model for prediction of Ki-67 for meningiomas using pretreatment MR images	13
A tyrosine kinase inhibitor-induced interferon response positively associates with clinical response in EGFR-mutant lung cancer	13
Bayesian risk prediction model for colorectal cancer mortality through integration of clinicopathologic and genomic data	13
Revealing neuroendocrine transformation in gynecological cancers through genomic analysis	13
A multiparameter liquid biopsy approach allows to track melanoma dynamics and identify early treatment resistance	13
Development of a deep learning model for cancer diagnosis by inspecting cell-free DNA end-motifs	13
ALDH1A1 promotes PARP inhibitor resistance by enhancing retinoic acid receptor-mediated DNA polymerase θ expression	13
Refined high-content imaging-based phenotypic drug screening in zebrafish xenografts	13
A morphometric signature to identify ductal carcinoma in situ with a low risk of progression	13
Molecular characterization of low-grade serous ovarian carcinoma identifies genomic aberrations according to hormone receptor expression	13
MC1R signaling through the cAMP-CREB/ATF-1 and ERK-NFκB pathways accelerates G1/S transition promoting breast cancer progression	13
Intraoperative margin assessment for basal cell carcinoma with deep learning and histologic tumor mapping to surgical site	13
Integrated drug resistance and leukemic stemness gene-expression scores predict outcomes in large cohort of over 3500 AML patients from 10 trials	13
Illuminating the future of precision cancer surgery with fluorescence imaging and artificial intelligence convergence	13
Deep learning predicts patients outcome and mutations from digitized histology slides in gastrointestinal stromal tumor	12
PERK mediates resistance to BRAF inhibition in melanoma with impaired PTEN	12
Role of GPX3+ astrocytes in breast cancer brain metastasis activated by circulating tumor cell exosomes	12
Molecular landscape of ERBB2 alterations in 3000 advanced NSCLC patients	12
Pharmacogenomic discovery of genetically targeted cancer therapies optimized against clinical outcomes	12
Immunologic correlates in a CIC::DUX4 fusion-positive sarcoma responsive to dual immune checkpoint blockade	12
Proximity of immune and tumor cells underlies response to BRAF/MEK-targeted therapies in metastatic melanoma patients	12
Crizotinib in patients with tumors harboring ALK or ROS1 rearrangements in the NCI-MATCH trial	12
RNF4 mediated degradation of PDHA1 promotes colorectal cancer metabolism and metastasis	12
A single-cell based precision medicine approach using glioblastoma patient-specific models	12
Multimodal analysis suggests differential immuno-metabolic crosstalk in lung squamous cell carcinoma and adenocarcinoma	12
A deep learning model, NAFNet, predicts adverse pathology and recurrence in prostate cancer using MRIs	12
Multi-omics analysis unveils immunosuppressive microenvironment in the occurrence and development of multiple pulmonary lung cancers	12