Jean Yang
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Australian statistician & academic
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Jean Yangmathematics Degrees
Mathematics
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Statistics
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Mathematics
Jean Yang's Degrees
- Masters Statistics University of Melbourne
- PhD Statistics Australian National University
Why Is Jean Yang Influential?
(Suggest an Edit or Addition)According to Wikipedia, Jean Yee Hwa Yang is an Australian statistician known for her work on variance reduction for microarrays, and for inferring proteins from mass spectrometry data. Yang is a Professor in the School of Mathematics and Statistics at the University of Sydney.
Jean Yang's Published Works
Published Works
- Whole-genome landscapes of major melanoma subtypes (2017) (875)
- Patterns of somatic structural variation in human cancer genomes (2020) (377)
- Dynamic Adipocyte Phosphoproteome Reveals that Akt Directly Regulates mTORC2 (2013) (341)
- Analysis of CDNA Microarray Images (2001) (240)
- Circulating Cytokines Predict Immune-Related Toxicity in Melanoma Patients Receiving Anti-PD-1–Based Immunotherapy (2018) (184)
- Transcriptional downregulation of MHC class I and melanoma de- differentiation in resistance to PD-1 inhibition (2020) (119)
- Identifying differentially expressed genes from microarray experiments via statistic synthesis (2004) (113)
- scMerge leverages factor analysis, stable expression, and pseudoreplication to merge multiple single-cell RNA-seq datasets (2019) (105)
- Ensemble deep learning in bioinformatics (2020) (104)
- Disease-specific gene expression profiling in multiple models of lung disease. (2008) (102)
- Comparison study of microarray meta-analysis methods (2010) (96)
- Multi-Omic Profiling Reveals Dynamics of the Phased Progression of Pluripotency (2018) (91)
- Bioconductor R Packages for Exploratory Analysis and Normalization of cDNA Microarray Data (2003) (91)
- Mitochondrial CoQ deficiency is a common driver of mitochondrial oxidants and insulin resistance (2018) (84)
- Impact of similarity metrics on single-cell RNA-seq data clustering (2018) (83)
- Combining BET and HDAC inhibitors synergistically induces apoptosis of melanoma and suppresses AKT and YAP signaling (2015) (72)
- Targeting activating mutations of EZH2 leads to potent cell growth inhibition in human melanoma by derepression of tumor suppressor genes (2015) (69)
- Shark bites and public attitudes: Policy implications from the first before and after shark bite survey (2013) (67)
- Identification, Review, and Systematic Cross-Validation of microRNA Prognostic Signatures in Metastatic Melanoma. (2016) (66)
- Determination of prognosis in metastatic melanoma through integration of clinico‐pathologic, mutation, mRNA, microRNA, and protein information (2015) (66)
- PD-L1 Expression and Immune Escape in Melanoma Resistance to MAPK Inhibitors (2017) (64)
- Single-cell RNA-Seq analysis reveals dynamic trajectories during mouse liver development (2017) (60)
- A multi-array multi-SNP genotyping algorithm for Affymetrix SNP microarrays (2007) (59)
- Distinct Molecular Profiles and Immunotherapy Treatment Outcomes of V600E and V600K BRAF-Mutant Melanoma (2019) (49)
- Strategies to enable large-scale proteomics for reproducible research (2020) (48)
- Increased DNA microarray hybridization specificity using sscDNA targets (2005) (46)
- scClassify: sample size estimation and multiscale classification of cells using single and multiple reference (2020) (46)
- Fluid intake and all-cause mortality, cardiovascular mortality and kidney function: a population-based longitudinal cohort study. (2014) (44)
- Plasma Levels of TMAO can be Increased with 'Healthy' and 'Unhealthy' Diets and Do Not Correlate with the Extent of Atherosclerosis but with Plaque Instability. (2020) (44)
- Gene-gene interaction filtering with ensemble of filters (2011) (43)
- A biotin label-based antibody array for high-content profiling of protein expression. (2010) (41)
- Evaluating stably expressed genes in single cells (2018) (39)
- Utilizing state‐of‐the‐art “omics” technology and bioinformatics to identify new biological mechanisms and biomarkers for coronary artery disease (2018) (39)
- PD-L1 expression in tonsillar cancer is associated with human papillomavirus positivity and improved survival: implications for anti-PD1 clinical trials (2016) (37)
- Positive-unlabeled ensemble learning for kinase substrate prediction from dynamic phosphoproteomics data (2015) (34)
- Significant association of PD-L1 expression with human papillomavirus positivity and its prognostic impact in oropharyngeal cancer. (2019) (33)
- Core functional nodes and sex-specific pathways in human ischaemic and dilated cardiomyopathy (2020) (33)
- Autoencoder-based cluster ensembles for single-cell RNA-seq data analysis (2019) (30)
- Stability of feature selection algorithms and ensemble feature selection methods in bioinformatics (2013) (30)
- Investigating higher order interactions in single cell data with scHOT (2019) (30)
- Analysis of a Splice Array Experiment Elucidates Roles of Chromatin Elongation Factor Spt4–5 in Splicing (2005) (29)
- scJoint integrates atlas-scale single-cell RNA-seq and ATAC-seq data with transfer learning (2022) (27)
- CiteFuse enables multi-modal analysis of CITE-seq data. (2020) (27)
- AdaSampling for Positive-Unlabeled and Label Noise Learning With Bioinformatics Applications (2019) (26)
- Direction pathway analysis of large-scale proteomics data reveals novel features of the insulin action pathway (2014) (25)
- Knowledge-Based Analysis for Detecting Key Signaling Events from Time-Series Phosphoproteomics Data (2015) (25)
- Network-based biomarkers enhance classical approaches to prognostic gene expression signatures (2014) (24)
- CiteFuse enables multi-modal analysis of CITE-seq data (2019) (24)
- Combining serum microRNA and CA-125 as prognostic indicators of preoperative surgical outcome in women with high-grade serous ovarian cancer. (2018) (24)
- Benchmarking clustering algorithms on estimating the number of cell types from single-cell RNA-sequencing data (2022) (23)
- PhosphOrtholog: a web-based tool for cross-species mapping of orthologous protein post-translational modifications (2015) (23)
- KinasePA: Phosphoproteomics data annotation using hypothesis driven kinase perturbation analysis (2016) (22)
- Effect of chronic exercise in healthy young male adults: a metabolomic analysis. (2020) (21)
- Integrated single cell data analysis reveals cell specific networks and novel coactivation markers (2016) (21)
- Systematic functional identification of cancer multi-drug resistance genes (2020) (21)
- Biobanking for discovery of novel cardiovascular biomarkers using imaging-quantified disease burden: protocol for the longitudinal, prospective, BioHEART-CT cohort study (2019) (20)
- scDC: single cell differential composition analysis (2019) (19)
- A prediction model for viability at the end of the first trimester after a single early pregnancy evaluation (2013) (18)
- Positive unlabeled learning via wrapper-based adaptive sampling (2017) (18)
- Improving X!Tandem on Peptide Identification from Mass Spectrometry by Self-Boosted Percolator (2012) (18)
- Health-Related Quality of Life in People Across the Spectrum of CKD (2020) (17)
- Protein signatures correspond to survival outcomes of AJCC stage III melanoma patients (2014) (17)
- Nodal and BMP expression during the transition to pentamery in the sea urchin Heliocidaris erythrogramma: insights into patterning the enigmatic echinoderm body plan (2017) (17)
- Clonal evolution in liver cancer at single-cell and single-variant resolution (2021) (16)
- scReClassify: post hoc cell type classification of single-cell rNA-seq data (2019) (16)
- CD103+ tumor-resident CD8+ T cell numbers underlie improved patient survival in oropharyngeal squamous cell carcinoma (2020) (16)
- One-Time Fecal Immunochemical Screening for Advanced Colorectal Neoplasia in Patients with CKD (DETECT Study). (2019) (15)
- Novel subdomains of the mouse olfactory bulb defined by molecular heterogeneity in the nascent external plexiform and glomerular layers (2007) (15)
- Integrative analysis identifies co‐dependent gene expression regulation of BRG1 and CHD7 at distal regulatory sites in embryonic stem cells (2017) (15)
- Hyperactivation of the Insulin Signaling Pathway Improves Intracellular Proteostasis by Coordinately Up-regulating the Proteostatic Machinery in Adipocytes* (2016) (15)
- Differential gene expression profiling after conditional Müller-cell ablation in a novel transgenic model. (2013) (14)
- Detection and classification of peaks in 5' cap RNA sequencing data (2013) (14)
- Housekeeping genes, revisited at the single-cell level (2017) (14)
- Tuning of delta-protocadherin adhesion through combinatorial diversity (2018) (14)
- Differential distribution improves gene selection stability and has competitive classification performance for patient survival (2016) (13)
- ClassifyR: an R package for performance assessment of classification with applications to transcriptomics (2015) (13)
- Analysis of the Whole-Exome Sequencing of Tumor and Circulating Tumor DNA in Metastatic Melanoma (2019) (13)
- A dynamic wavelet-based algorithm for pre-processing tandem mass spectrometry data (2010) (13)
- A benchmark study of simulation methods for single-cell RNA sequencing data (2021) (13)
- Quantifying the effect of body mass index, age, and depression severity on 24-h activity patterns in persons with a lifetime history of affective disorders (2016) (13)
- The impact of device-assisted therapies on the gut microbiome in Parkinson’s disease (2021) (13)
- Mutational and transcriptomic landscapes of a rare human prostate basal cell carcinoma (2020) (12)
- ISL1 Regulates Peroxisome Proliferator-Activated Receptor γ Activation and Early Adipogenesis via Bone Morphogenetic Protein 4-Dependent and -Independent Mechanisms (2014) (12)
- Transcriptomic analysis of Nodal- and BMP-associated genes during juvenile development of the sea urchin Heliocidaris erythrogramma. (2015) (12)
- OCAP: an open comprehensive analysis pipeline for iTRAQ (2012) (11)
- The health digital twin to tackle cardiovascular disease—a review of an emerging interdisciplinary field (2022) (11)
- scClassify: hierarchical classification of cells (2019) (11)
- The transcriptional response to oxidative stress is part of, but not sufficient for, insulin resistance in adipocytes (2018) (10)
- Uncovering cell identity through differential stability with Cepo (2021) (10)
- Cross-species gene expression analysis identifies a novel set of genes implicated in human insulin sensitivity (2015) (9)
- Two-Step Cross-Entropy Feature Selection for Microarrays—Power Through Complementarity (2011) (9)
- Metabolic Signatures in Coronary Artery Disease: Results from the BioHEART-CT Study (2021) (9)
- The Gut Microbiome in Parkinson’s Disease: A Longitudinal Study of the Impacts on Disease Progression and the Use of Device-Assisted Therapies (2022) (9)
- Analysis of Post-Liver Transplant Hepatitis C Virus Recurrence Using Serial Cluster of Differentiation Antibody Microarrays (2015) (8)
- Characterizing mutation-expression network relationships in multiple cancers (2015) (8)
- Transcriptomic analysis of sea star development through metamorphosis to the highly derived pentameral body plan with a focus on neural transcription factors (2020) (7)
- A hierarchical approach to removal of unwanted variation for large-scale metabolomics data (2020) (7)
- Challenges for Brain Data Analysis in VR Environments (2019) (7)
- Prediction modelling - Part 2 - Using machine learning strategies to improve transplantation outcomes. (2020) (7)
- Re-fraction: a machine learning approach for deterministic identification of protein homologues and splice variants in large-scale MS-based proteomics. (2012) (7)
- scJoint: transfer learning for data integration of single-cell RNA-seq and ATAC-seq (2021) (7)
- Gene expression allelic imbalance in ovine brown adipose tissue impacts energy homeostasis (2017) (7)
- Integrative Analysis of Prognostic Biomarkers for Acute Rejection in Kidney Transplant Recipients. (2020) (6)
- Quantitative Performance Evaluator for Proteomics (QPEP): Web-based Application for Reproducible Evaluation of Proteomics Preprocessing Methods. (2017) (6)
- DCARS: Differential correlation across ranked samples (2018) (6)
- A multi-step classifier addressing cohort heterogeneity improves performance of prognostic biomarkers in three cancer types (2016) (6)
- Estimation of data-specific constitutive exons with RNA-Seq data (2013) (5)
- Construction of a Human Cell Landscape of COVID-19 Infection at Single-cell Level (2021) (5)
- Characterization of cell-cell communication in COVID-19 patients (2020) (5)
- Factors Associated With Advanced Colorectal Neoplasia in Patients With CKD. (2021) (5)
- Nutritional Intake and Gut Microbiome Composition Predict Parkinson’s Disease (2022) (5)
- Improved moderation for gene-wise variance estimation in RNA-Seq via the exploitation of external information (2013) (5)
- Survival and Quality of Life Impact of a Risk-based Allocation Algorithm for Deceased Donor Kidney Transplantation (2018) (5)
- Melanoma Explorer: a web application to allow easy reanalysis of publicly available and clinically annotated melanoma omics data sets (2019) (4)
- Psychosocial stratification of antenatal indicators to guide population-based programs in perinatal depression (2019) (4)
- Binary self-assembled monolayers: spectroscopy and application to liquid crystal alignment (1994) (4)
- Inferring data-specific micro-RNA function through the joint ranking of micro-RNA and pathways from matched micro-RNA and gene expression data (2015) (4)
- SurvBenchmark: comprehensive benchmarking study of survival analysis methods using both omics data and clinical data (2021) (4)
- 78Gy with Fiducial Marker Image‐Guided Radiotherapy in Prostate Cancer: Single Center Analysis of 301 Patients (2017) (4)
- Transcriptional downregulation of MHC class I and melanoma de- differentiation in resistance to PD-1 inhibition (2020) (4)
- Abstract 975: Liver metastases (mets) induce systemic immunosuppression and immunotherapy resistance in metastatic melanoma (2019) (3)
- 3D reconstruction of spatial expression (2022) (3)
- Cross-Species PTM Mapping from Phosphoproteomic Data. (2017) (3)
- Treatment usage patterns of oral appliances for obstructive sleep apnea over the first 60 days: a cluster analysis. (2021) (3)
- Distinct gene expression, mutational profile and clinical outcomes of V600E and V600K/R BRAF-mutant metastatic melanoma (MM). (2017) (3)
- An Uncertainty Visual Analytics Framework for fMRI Functional Connectivity (2018) (3)
- QCMAP: An Interactive Web‐Tool for Performance Diagnosis and Prediction of LC‐MS Systems (2019) (3)
- scFeatures: multi-view representations of single-cell and spatial data for disease outcome prediction (2022) (3)
- Taking Kidneys for Granted? Time to Reflect on the Choices We Make. (2017) (2)
- bcGST—an interactive bias‐correction method to identify over‐represented gene‐sets in boutique arrays (2018) (2)
- Fast and approximate exhaustive variable selection for generalised linear models with APES (2019) (2)
- Genome-wide analysis in Drosophila reveals diet-by-gene interactions and uncovers diet-responsive genes (2019) (2)
- Cell Metabolism Resource Dynamic Adipocyte Phosphoproteome Reveals that Akt Directly Regulates mTORC 2 (2014) (2)
- Metabolite signatures of heart failure, sleep apnoea, their interaction, and outcomes in the community (2021) (2)
- Oral Squamous Cell Carcinoma in Young Patients Show Higher Rates of EGFR Amplification: Implications for Novel Personalized Therapy (2021) (2)
- Fecal Immunochemical Screening for Advanced Colorectal Neoplasia in Patients with CKD: Accurate or Not? Reply (2019) (2)
- Cepo uncovers cell identity through differential stability (2021) (1)
- scREMOTE: Using multimodal single cell data to predict regulatory gene relationships and to build a computational cell reprogramming model (2021) (1)
- Transcriptomic analysis of Nodal - and BMP- associated genes during development to the juvenile seastar in Parvulastra exigua (Asterinidae). (2021) (1)
- scSTAR reveals hidden heterogeneity with a real-virtual cell pair structure across conditions in single-cell RNA sequencing data (2023) (1)
- Latin square dataset for evaluating the accuracy of mass spectrometry-based protein identification and quantification (2013) (1)
- LC-N2G: a local consistency approach for nutrigenomics data analysis (2020) (1)
- Microarrays--planning your experiment. (2008) (1)
- scSTAR reveals hidden heterogeneity with a real-virtual cell pair structure across single cell samples (2022) (1)
- Diagonal Discriminant Analysis With Feature Selection for High-Dimensional Data (2018) (1)
- Cancer microarray feature selection using support vector machines: comparing regularization techniques (2009) (1)
- Cross-Platform Omics Prediction procedure: a game changer for implementing precision medicine in patients with stage-III melanoma (2020) (1)
- Authors' Reply. (2019) (1)
- Association of Global Coagulation Profiles With Cardiovascular Risk Factors and Atherosclerosis: A Sex Disaggregated Analysis From the BioHEART‐CT Study (2021) (1)
- Modelling maternal and perinatal risk factors to predict poorly controlled childhood asthma (2021) (1)
- Single-Cell RNA-Seq Reveals Naïve B cells Associated with Better Prognosis of HCC (2019) (1)
- Jurisdictional inequalities in deceased donor kidney allocation in Australia. (2021) (1)
- Nonutilization of Kidneys From Donors After Circulatory Determinant of Death (2022) (1)
- Composition of Binary Self-Assembled Monolayers of Alkyltrichlorosilanes (1998) (1)
- hRUV: Hierarchical approach to removal of unwanted variation for large- 1 scale metabolomics data 2 (2021) (1)
- PhosphOrtholog: a web-based tool for cross-species mapping of orthologous protein post-translational modifications (2015) (1)
- Single-cell RNA-Seq analysis reveals dynamic trajectories during mouse liver development (2017) (0)
- Scalable workflow for characterization of cell-cell communication in COVID-19 patients (2022) (0)
- Correction: Detection and classification of peaks in 5' cap RNA sequencing data (2013) (0)
- Guiding and interpreting brain network classification with transcriptional data (2020) (0)
- 037 The gut microbiome in Parkinson’s disease: longitudinal insights into disease progression and the use of device-assisted therapies (2021) (0)
- Genomic Landscape of Patient-matched Tumor and Circulating Cell-free DNA in Metastatic Melanoma (2019) (0)
- Estimation of False Discovery Rate of Protein Identification (2012) (0)
- Covidscope: An atlas-scale COVID-19 resource for single-cell meta analysis at sample and cell levels (2022) (0)
- Genome-wide analysis of diet and gene interactions in Drosophila uncovers the glucose transporter, CG4607, as a diet-responsive gene (2019) (0)
- 091 The impact of device-assisted therapy initiation on the gut microbiome in Parkinson’s disease (2021) (0)
- Endoplasmic reticulum protein 5 attenuates platelet endoplasmic reticulum stress and secretion in a mouse model. (2022) (0)
- 015 Gut microbiota and nutritional profiles of Parkinson’s disease patients (2021) (0)
- Trajectories of Systolic Blood Pressure Decline in Kidney Donors After Circulatory Death and Delayed Graft Function (2021) (0)
- IDENTIFICATION OF DRIVEN RISK FACTORS FOR HLA-DR IN KIDNEY TRANSPLANTATION (2020) (0)
- SimKAP: Simulation Framework for the Kidney Allocation Process with Decision Making Model (2023) (0)
- Benchmarking clustering algorithms on estimating the number of cell types from single-cell RNA-sequencing data (2022) (0)
- bcGST - an interactive bias-correction method to identify over-represented gene-sets in boutique arrays (2017) (0)
- Trash or Treasure: Rescuing Discard Kidneys. (2021) (0)
- Whole Genome Duplication is Common in Oral Squamous Cell Carcinoma in Patients Younger Than 50 Years of Age and is Preceded by TP53 Alterations (2021) (0)
- INTEGRATIVE ANALYSIS OF PROGNOSTIC BIOMARKERS FOR ACUTE REJECTION IN KIDNEY TRANSPLANT RECIPIENTS (2020) (0)
- A PERSONALISED PREDICTION MODEL FOR ALLOGRAFT SURVIVAL AFTER KIDNEY TRANSPLANTATION (2020) (0)
- Identification of new biomarkers in ovarian cancer using biotin-label-based antibody arrays (2008) (0)
- Trajectories of systolic blood pressure decline in kidney transplant donors prior to circulatory death and delayed graft function (2023) (0)
- treekoR: identifying cellular-to-phenotype associations by elucidating hierarchical relationships in high-dimensional cytometry data (2021) (0)
- Spectroscopic and X-Ray Reflectivity Studies of Binary Self-Assembled Mon olayers Containing Naphthalene. (1996) (0)
- Study of the intensity dependence of the internal electric field in a GaAs/AlxGa1–xAs multiple-quantum-well nipi by means of photoreflectance (1993) (0)
- Global Genomic Analysis of Retinae from Selective Müller Cell Knockout Mice (2012) (0)
- Investigating higher-order interactions in single-cell data with scHOT (2020) (0)
- Supplementary Figures and Methods (2013) (0)
- Thinking process templates for constructing data stories with SCDNEY (2023) (0)
- An Uncertainty Visual Analytics Framework for fMRI Functional Connectivity (2018) (0)
- PM381 The role of lipocalin-2 gene in cell death in a heritable polygenic model of cardiac hypertrophy (2014) (0)
- Mapping the insulin signalling network (2013) (0)
- Viral Integration Plays a Minor Role in the Development and Prognostication of Oral Squamous Cell Carcinoma (2022) (0)
- 445 ABNORMAL MICRORNA EXPRESSION IN CARDIAC HYPERTROPHY AND THE REGULATION OF THE Endog gene (2012) (0)
- Genetic architecture of a healthy diet in Drosophila (2019) (0)
- Table S2. All Identified Phosphorylation Sites, Related to Figure 1 (2013) (0)
- Table S1. Inhibitor Screen Insulin-Regulated Phosphorylation Sites, Related to Figure 1 (2013) (0)
- Vertical data integration for melanoma prognosis (2013) (0)
- Benchmarking of analytical combinations for COVID-19 outcome prediction using single-cell RNA sequencing data (2023) (0)
- Table S3. Class I Phosphorylation Sites, Related to Figure 1 (2013) (0)
- Gene expression Inferring data-specific microRNA function through the joint ranking of microRNA and pathways from matched microRNA and gene expression data (2015) (0)
- Genome wide analysis in Drosophila reveals diet by gene interactions and uncovers diet- 1 responsive genes 2 (2021) (0)
- Core functional nodes and sex-specific pathways in human ischaemic and dilated cardiomyopathy (2020) (0)
- Computational approaches for direct cell reprogramming: from the bulk omics era to the single cell era (2022) (0)
- treekoR: identifying cellular-to-phenotype associations by elucidating hierarchical relationships in high-dimensional cytometry data (2021) (0)
- NEMoE: a nutrition aware regularized mixture of experts model to identify heterogeneous diet-microbiome-host health interactions (2023) (0)
- LC-N2G: a local consistency approach for nutrigenomics data analysis (2020) (0)
- The transcriptional response to oxidative stress is part of, but not sufficient for, insulin resistance in adipocytes (2018) (0)
- Exploring pan-cancer network relationships between somatic changes and expression profiles with PACMEN (2016) (0)
- A 14‐Protein Signature for Rapid Identification of Poor Prognosis Stage III Metastatic Melanoma (2018) (0)
- Cross-Platform Omics Prediction procedure: a statistical machine learning framework for wider implementation of precision medicine (2022) (0)
- Deep Multimodal Graph-Based Network for Survival Prediction from Highly Multiplexed Images and Patient Variables (2022) (0)
- Atlas-scale single-cell multi-sample multi-condition data integration using scMerge2 (2022) (0)
- Ensemble deep learning of embeddings for clustering multimodal single-cell omics data (2023) (0)
- 797 Up-regulation of autophagic pathways early in life might contribute to cardiac hypertrophy in a heritable polygenic model (2012) (0)
- Nodal and BMP expression during the transition to pentamery in the sea urchin Heliocidaris erythrogramma: insights into patterning the enigmatic echinoderm body plan (2017) (0)
- Single-cell dissection of a rare human prostate basal cell carcinoma (2019) (0)
- Single-cell and single-variant resolution analysis of clonal evolution in human liver cancer (2021) (0)
- Author response: Tuning of delta-protocadherin adhesion through combinatorial diversity (2018) (0)
- Metabolites downstream of predicted loss-of-function variants inform relationship to disease. (2019) (0)
- One-Time Faecal Immunochemical Screening for Advanced Colorectal Neoplasia in Patients with Chronic Kidney Disease (Detect Study) (2018) (0)
- Whole genome duplication in oral squamous cell carcinoma in patients younger than 50 years: implications for prognosis and adverse clinicopathological factors (2022) (0)
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Jean Yang is affiliated with the following schools: