npj Precision Oncology

Article	Citations
High-throughput proteomics profiling-derived signature associated with chemotherapy response and survival for stage II/III colorectal cancer	154
Secrets of DNA-PKcs beyond DNA repair	96
Integrins identified as potential prognostic markers in osteosarcoma through multi-omics and multi-dataset analysis	76
Genomic features and tumor immune microenvironment alteration in NSCLC treated with neoadjuvant PD-1 blockade	66
Defective homologous recombination and genomic instability predict increased responsiveness to carbon ion radiotherapy in pancreatic cancer	66
Pan-cancer analysis of genomic scar patterns caused by homologous repair deficiency (HRD)	64
Detecting HLA loss of heterozygosity within a standard diagnostic sequencing workflow for prognostic and therapeutic opportunities	64
Artificial intelligence in neuro-oncology: advances and challenges in brain tumor diagnosis, prognosis, and precision treatment	61
Osimertinib and palbociclib in an EGFR-mutated NSCLC with primary CDK4 amplification after progression under osimertinib	56
Single cell analysis revealed SFRP2 cancer associated fibroblasts drive tumorigenesis in head and neck squamous cell carcinoma	56
Towards precision radiation oncology: endocrine therapy response as a biomarker for personalization of breast radiotherapy	55
Landscape of potentially targetable receptor tyrosine kinase fusions in diverse cancers by DNA-based profiling	51
A framework for artificial intelligence in cancer research and precision oncology	50
Genome-wide analyses reveals an association between invasive urothelial carcinoma in the Shetland sheepdog and NIPAL1	50
Case series of outcomes in advanced cancer patients with single pathway alterations receiving N-of-One therapies	47
CCL11/CCR3-dependent eosinophilia alleviates malignant pleural effusions and improves prognosis	47
ELAVL2 loss promotes aggressive mesenchymal transition in glioblastoma	45
MEK inhibitor resistance in lung adenocarcinoma is associated with addiction to sustained ERK suppression	41
PIM1 is a potential therapeutic target for the leukemogenic effects mediated by JAK/STAT pathway mutations in T-ALL/LBL	40
Learning generalizable AI models for multi-center histopathology image classification	40
Constitutional mismatch repair deficiency mimicking Lynch syndrome is associated with hypomorphic mismatch repair gene variants	38
BRAF v600E–mutant cancers treated with vemurafenib alone or in combination with everolimus, sorafenib, or crizotinib or with paclitaxel and carboplatin (VEM-PLUS) study	36
Lorlatinib and capmatinib in a ROS1-rearranged NSCLC with MET-driven resistance: tumor response and evolution	35
Tumor-associated macrophage clusters linked to immunotherapy in a pan-cancer census	34
Development and validation of a gene expression-based Breast Cancer Purity Score	33

Patient-level proteomic network prediction by explainable artificial intelligence	33
Endometrial cancer PDX-derived organoids (PDXOs) and PDXs with FGFR2c isoform expression are sensitive to FGFR inhibition	33
Upregulated PrPC by HBx enhances NF-κB signal via liquid–liquid phase separation to advance liver cancer	33
Clonal gene signatures predict prognosis in mesothelioma and lung adenocarcinoma	33
Comparison of DNA methylation based classification models for precision diagnostics of central nervous system tumors	32
Exploiting common patterns in diverse cancer types via multi-task learning	32
Reduced penetrance BRCA1 and BRCA2 pathogenic variants in clinical germline genetic testing	32
Fast, accurate, and racially unbiased pan-cancer tumor-only variant calling with tabular machine learning	31
A destabilizing Y891D mutation in activated EGFR impairs sensitivity to kinase inhibition	30
Targeting TYK2 alleviates Rab27A-induced malignant progression of non-small cell lung cancer via disrupting IFNα-TYK2-STAT-HSPA5 axis	29
Multi-omics analysis reveals NNMT as a master metabolic regulator of metastasis in esophageal squamous cell carcinoma	29
Emergence of mTOR mutation as an acquired resistance mechanism to AKT inhibition, and subsequent response to mTORC1/2 inhibition	29
Spatial tumor immune microenvironment phenotypes in ovarian cancer	29
The current landscape of spatial biomarkers for prediction of response to immune checkpoint inhibition	29
DNA methylation at quantitative trait loci (mQTLs) varies with cell type and nonheritable factors and may improve breast cancer risk assessment	28
Immunological subtyping of salivary gland cancer identifies histological origin-specific tumor immune microenvironment	27
Evolution of MET and NRAS gene amplification as acquired resistance mechanisms in EGFR mutant NSCLC	27
Biallelic EPCAM deletions induce tissue-specific DNA repair deficiency and cancer predisposition	27
Development and testing of a polygenic risk score for breast cancer aggressiveness	27
An appraisal of genetic testing for prostate cancer susceptibility	26
Preoperative immune landscape predisposes adverse outcomes in hepatocellular carcinoma patients with liver transplantation	25
STAT3 inhibition suppresses adaptive survival of ALK-rearranged lung cancer cells through transcriptional modulation of apoptosis	25
Targeting extracellular and juxtamembrane FGFR2 mutations in chemotherapy-refractory cholangiocarcinoma	25
ACSL3 is an unfavorable prognostic marker in cholangiocarcinoma patients and confers ferroptosis resistance in cholangiocarcinoma cells	24
Deep learning for endometrial cancer subtyping and predicting tumor mutational burden from histopathological slides	24
Methylation marks in blood DNA reveal breast cancer risk in patients fulfilling hereditary disease criteria	24
Characterization of shared neoantigens landscape in Mismatch Repair Deficient Endometrial Cancer	24
Immunotherapy for recurrent or metastatic nasopharyngeal carcinoma	24
Zebrafish tumour xenograft models: a prognostic approach to epithelial ovarian cancer	23
Developing survival prediction models in colorectal cancer using epigenome-wide DNA methylation data from whole blood	23
Genome-matched treatments and patient outcomes in the Maine Cancer Genomics Initiative (MCGI)	23
A comprehensive analysis of minimally differentially methylated regions common to pediatric and adult solid tumors	23
A protein-encoding CCDC7 circular RNA inhibits the progression of prostate cancer by up-regulating FLRT3	22
Single-cell transcriptome sequencing reveals spatial distribution of IL34+ cancer-associated fibroblasts in hepatocellular carcinoma tumor microenvironment	22
Targeting the epichaperome as an effective precision medicine approach in a novel PML-SYK fusion acute myeloid leukemia	22
Comprehensive genetic profiling and molecularly guided treatment for patients with primary CNS tumors	22
Pre-radiotherapy ctDNA liquid biopsy for risk stratification of oligometastatic non-small cell lung cancer	22
An automated deep learning pipeline for EMVI classification and response prediction of rectal cancer using baseline MRI: a multi-centre study	21
Small extracellular vesicle PD-L1 in cancer: the knowns and unknowns	20
New regulatory thinking is needed for AI-based personalised drug and cell therapies in precision oncology	20
Single-cell spatial architectures associated with clinical outcome in head and neck squamous cell carcinoma	20
Imaging and AI based chromatin biomarkers for diagnosis and therapy evaluation from liquid biopsies	20
Single cell-spatial transcriptomics and bulk multi-omics analysis of heterogeneity and ecosystems in hepatocellular carcinoma	20
Longitudinal liquid biopsy predicts clinical benefit from immunotherapy in advanced non-small cell lung cancer	19
Co-targeting KRAS G12C and EGFR reduces both mutant and wild-type RAS-GTP	19
Grading of lung adenocarcinomas with simultaneous segmentation by artificial intelligence (GLASS-AI)	19
Predicting prognosis for epithelial ovarian cancer patients receiving bevacizumab treatment with CT-based deep learning	19
Proteomics based selection achieves complete response to HER2 therapy in HER2 IHC 0 breast cancer	19
Secondary IDH1 resistance mutations and oncogenic IDH2 mutations cause acquired resistance to ivosidenib in cholangiocarcinoma	19
Barriers and opportunities in pancreatic cancer immunotherapy	19

Precision immuno-oncology approach for four malignant tumors in siblings with constitutional mismatch repair deficiency syndrome	19
A DNA methylation-based liquid biopsy for triple-negative breast cancer	19
Assessment of TROP2, CEACAM5 and DLL3 in metastatic prostate cancer: Expression landscape and molecular correlates	19
Genomic characterization and outcome evaluation of kinome fusions in lung cancer revealed novel druggable fusions	19
Analyses of canine cancer mutations and treatment outcomes using real-world clinico-genomics data of 2119 dogs	19
Breast cancer brain metastases genomic profiling identifies alterations targetable by immune-checkpoint and PARP inhibitors	19
Integrative modeling uncovers p21-driven drug resistance and prioritizes therapies for PIK3CA-mutant breast cancer	19
Integrative molecular analyses define correlates of high B7-H3 expression in metastatic castrate-resistant prostate cancer	19
Antibody-drug conjugates in lung cancer: dawn of a new era?	18
HRD effects on first-line adjuvant chemotherapy and PARPi maintenance therapy in Chinese ovarian cancer patients	18
Immune microenvironment characterisation and dynamics during anti-HER2-based neoadjuvant treatment in HER2-positive breast cancer	18
Bayesian multi-source regression and monocyte-associated gene expression predict BCL-2 inhibitor resistance in acute myeloid leukemia	18
Recurrent UBE3C-LRP5 translocations in head and neck cancer with therapeutic implications	18
BRAFV600E-mutant metastatic NSCLC: disease overview and treatment landscape	17
Precision medicine: affording the successes of science	17
A perspective on life-cycle health technology assessment and real-world evidence for precision oncology in Canada	17
Comparative molecular profiling of pancreatic ductal adenocarcinoma of the head versus body and tail	17
Molecular differences between lymph nodes and distant metastases compared with primaries in colorectal cancer patients	17
Single-cell analysis of gastric pre-cancerous and cancer lesions reveals cell lineage diversity and intratumoral heterogeneity	17
Targeting ErbB and tankyrase1/2 prevent the emergence of drug-tolerant persister cells in ALK-positive lung cancer	17
A deep learning model for molecular label transfer that enables cancer cell identification from histopathology images	17
Author Correction: Circulating tumor cell heterogeneity in neuroendocrine prostate cancer by single cell copy number analysis	16
Author Correction: Targeting the DYRK1A kinase prevents cancer progression and metastasis and promotes cancer cells response to G1/S targeting chemotherapy drugs	16
Author Correction: TKI type switching overcomes ROS1 L2086F in ROS1 fusion-positive cancers	16
Author Correction: Mutational signature-based identification of DNA repair deficient gastroesophageal adenocarcinomas for therapeutic targeting	16
Deletions on 9p21 are associated with worse outcomes after anti-PD-1/PD-L1 monotherapy but not chemoimmunotherapy	16
DNA-based copy number analysis confirms genomic evolution of PDX models	16
Circulating tumor cell heterogeneity in neuroendocrine prostate cancer by single cell copy number analysis	16
Deep learning-based detection and semi-quantitative model for spread through air spaces (STAS) in lung adenocarcinoma	16
Multi-omics analysis deciphers intercellular communication regulating oxidative stress to promote oral squamous cell carcinoma progression	15
Deep learning for oncologic treatment outcomes and endpoints evaluation from CT scans in liver cancer	15
Discovery of prognostic lncRNAs in colorectal cancer using spatial transcriptomics	15
Immune microenvironment heterogeneity of concurrent adenocarcinoma and squamous cell carcinoma in multiple primary lung cancers	15
COL8A1 overexpression promotes glioma cell growth by activating focal adhesion kinase signaling cascade	15
Multiregional transcriptomic profiling provides improved prognostic insight in localized non-small cell lung cancer	15
Baseline gene expression profiling determines long-term benefit to programmed cell death protein 1 axis blockade	15
Pan-cancer evaluation of regulated cell death to predict overall survival and immune checkpoint inhibitor response	15
Retraction Note: Birinapant sensitizes platinum-resistant carcinomas with high levels of cIAP to carboplatin therapy	15
Interferon signaling and ferroptosis in tumor immunology and therapy	15
Adaptive segmentation-to-survival learning for survival prediction from multi-modality medical images	15
Characterizing advanced breast cancer heterogeneity and treatment resistance through serial biopsies and comprehensive analytics	14
Targeting Nrf2/PHKG2 axis to enhance radiosensitivity in NSCLC	14
Deep computational image analysis of immune cell niches reveals treatment-specific outcome associations in lung cancer	14
Towards precision oncology discovery: four less known genes and their unknown interactions as highest-performed biomarkers for colorectal cancer	14
PARP inhibitors promote stromal fibroblast activation by enhancing CCL5 autocrine signaling in ovarian cancer	14
Biology-aware mutation-based deep learning for outcome prediction of cancer immunotherapy with immune checkpoint inhibitors	14
Large language models and multimodal foundation models for precision oncology	13
A subset of lung cancer cases shows robust signs of homologous recombination deficiency associated genomic mutational signatures	13
PD-1 blockade potentiates neoadjuvant chemotherapy in NSCLC via increasing CD127+ and KLRG1+ CD8 T cells	13
Genetic program activity delineates risk, relapse, and therapy responsiveness in multiple myeloma	13
Chemoresistant fibroblasts dictate neoadjuvant chemotherapeutic response of head and neck cancer via TGFα-EGFR paracrine signaling	13
ERK pathway agonism for cancer therapy: evidence, insights, and a target discovery framework	13
Ribosome biosynthesis and Hedgehog activity are cooperative actionable signaling mechanisms in breast cancer following radiotherapy	13
Clinical application of a lung cancer organoid (tumoroid) culture system	13
AI powered quantification of nuclear morphology in cancers enables prediction of genome instability and prognosis	13
Deep learning on tertiary lymphoid structures in hematoxylin-eosin predicts cancer prognosis and immunotherapy response	13
Will polygenic risk scores for cancer ever be clinically useful?	13
Collision of germline POLE and PMS2 variants in a young patient treated with immune checkpoint inhibitors	13
Microsecond-timescale MD simulation of EGFR minor mutation predicts the structural flexibility of EGFR kinase core that reflects EGFR inhibitor sensitivity	13
Tumor heterogeneity and clinically invisible micrometastases in metastatic breast cancer—a call for enhanced surveillance strategies	13
BPI-28592 as a novel second generation inhibitor for NTRK fusion tumors	12
Molecular mechanisms and diagnostic model of glioma-related epilepsy	12
Diversity of TCR repertoire predicts recurrence after CRT followed by durvalumab in patients with NSCLC	12
Longitudinal investigation of albumin-to-globulin ratio for human cancers demonstrates benefit in postoperative serial remeasurement	12
Accurate identification of primary site in tumors of unknown origin (TUO) using DNA methylation	12
Histological transformation to gliosarcoma with combined BRAF/MEK inhibition in BRAF V600E mutated glioblastoma	12
Integrated molecular characterisation of endometrioid ovarian carcinoma identifies opportunities for stratification	12
A comprehensive overview of liquid biopsy applications in pediatric solid tumors	12
Home-run trials for rare cancers: giving the right drug(s) to the right patients at the right time and in the right place	12
Longitudinal genomic profiling using liquid biopsies in metastatic nonsquamous NSCLC following first line immunotherapy	12
Prediction models of persistent taxane-induced peripheral neuropathy among breast cancer survivors using whole-exome sequencing	12
Hyperspectral imaging benchmark based on machine learning for intraoperative brain tumour detection	12
Deep representation learning of tissue metabolome and computed tomography annotates NSCLC classification and prognosis	12
A targetable OSGIN1 − AMPK − SLC2A3 axis controls the vulnerability of ovarian cancer to ferroptosis	12
Latent class analysis-derived classification improves the cancer-specific death stratification of molecular subtyping in colorectal cancer	12
Genomic landscape and comparative analysis of tissue and liquid-based NGS in Taiwanese anaplastic thyroid carcinoma	12
TP53 gain-of-function mutations promote osimertinib resistance via TNF-α–NF-κB signaling in EGFR-mutated lung cancer	11
Ancestry-associated co-alteration landscape of KRAS and EGFR-altered non-squamous NSCLC	11
High-dimensional deconstruction of pancreatic cancer identifies tumor microenvironmental and developmental stemness features that predict survival	11
Genetic and epigenetic characterization of sarcoma stem cells across subtypes identifies EZH2 as a therapeutic target	11

Molecular disparities in colorectal cancers of White Americans, Alabama African Americans, and Oklahoma American Indians	11
Circulating tumor DNA is readily detectable among Ghanaian breast cancer patients supporting non-invasive cancer genomic studies in Africa	11
High risk clear cell renal cell carcinoma microenvironments contain protumour immunophenotypes lacking specific immune checkpoints	11
Integration of pre-treatment computational radiomics, deep radiomics, and transcriptomics enhances soft-tissue sarcoma patient prognosis	11
IKKα promotes lung adenocarcinoma growth through ERK signaling activation via DARPP-32-mediated inhibition of PP1 activity	11
Implications of different cell death patterns for prognosis and immunity in lung adenocarcinoma	11
Spatial iTME analysis of KRAS mutant NSCLC and immunotherapy outcome	10
Functional characterization of NPM1–TYK2 fusion oncogene	10
ALYREF recruits ELAVL1 to promote colorectal tumorigenesis via facilitating RNA m5C recognition and nuclear export	10
Multi-omics machine learning to study host-microbiome interactions in early-onset colorectal cancer	10
Inter-eye genomic heterogeneity in bilateral retinoblastoma via aqueous humor liquid biopsy	10
Immune-related cell death index and its application for hepatocellular carcinoma	10
Comprehensive molecular profiling of pulmonary pleomorphic carcinoma	10
Baseline biomarkers of efficacy and on-treatment immune-profile changes associated with bempegaldesleukin plus nivolumab	10
Genomic and epigenomic basis of breast invasive lobular carcinomas lacking CDH1 genetic alterations	10
Integrated multicenter deep learning system for prognostic prediction in bladder cancer	10
All models are wrong and yours are useless: making clinical prediction models impactful for patients	10