Faculty Year Post title Journal PubMed Field PDF
Kruglyak 2021 Whole-organism eQTL mapping at cellular resolution with single-cell sequencing eLife Link Comp Genetics & Genomics Download PDF
Bell 2021 Validation of an internationally derived patient severity phenotype to support COVID-19 analytics from electronic health record data Journal of American Medical Informatics Association Link Medical Informatics Download PDF
Chou 2021 Using excess deaths and testing statistics to determine COVID-19 mortalities European Journal of Epidemiology Link Mathematical Biology Download PDF
Hsu 2021 Using deep neural networks and interpretability methods to identify gene expression patterns that predict radiomic features and histology in non-small cell lung cancer Journal of Medical Imaging Link Medical Informatics Download PDF
Suchard 2021 Untangling introductions and persistence in COVID-19 resurgence in Europe Nature Link Mathematical Biology Download PDF
Franco 2021 Ultrasensitive molecular controllers for quasi-integral feedback Cell Systems Link Systems & Synthetic Biology Download PDF
Zaitlen 2021 Toward a fine-scale population health monitoring system Cell Press Link Medical Informatics Download PDF
Wollman 2021 TNF controls a speed-accuracy tradeoff in the cell death decision to restrict viral spread Nature Communications Link Systems & Synthetic Biology Download PDF
Jamshidi 2021 Tissue clearing techniques for three-dimensional optical imaging of intact human prostate and correlations with multi-parametric MRI Prostate Link Medical Informatics Download PDF
Qu 2021 The transient outward potassium current plays a key role in spiral wave breakup in ventricular tissue American Journal of Physiology Link Mathematical Biology Download PDF
Pellegrini 2021 The Gene Expression Deconvolution Interactive Tool (GEDIT): accurate cell type quantification from gene expression data Gigascience Link Comp Genetics & Genomics Download PDF
Pinter-Wollman 2021 The effect of individual learning on collective foraging in honey bees in complex environments Animal Bevahiour Link Mathematical Biology Download PDF
Pellegrini 2021 The cellular architecture of the antimicrobial response network in human leprosy granulomas Nature Immunology Link Comp Genetics & Genomics Download PDF
Pellegrini 2021 Targeted bisulfite sequencing for biomarker discovery Methods Link Comp Genetics & Genomics Download PDF
Hoffmann 2021 Stimulus-specific responses in innate immunity: Multilayered regulatory circuits Immunity Link Systems & Synthetic Biology Download PDF
Pellegrini 2021 Species-Specific Relationships between DNA and Chromatin Properties of CpG Islands in Embryonic Stem Cells and Differentiated Cells Stem Cell Reports Link Comp Genetics & Genomics Download PDF
Hoffmann 2021 Six distinct NFκB signaling codons convey discrete information to distinguish stimuli and enable appropriate macrophage responses Immunity Link Systems & Synthetic Biology Download PDF
Ernst 2021 Single-nucleotide conservation state annotation of the SARS-CoV-2 genome Communications Biology Link Comp Genetics & Genomics Download PDF
Pellegrini 2021 Single-cell sequencing of human white adipose tissue identifies new cell states in health and obesity Nature Immunology Link Comp Genetics & Genomics Download PDF
Pellegrini 2021 Single-cell RNA sequencing of batch Chlamydomonas cultures reveals heterogeneity in their diurnal cycle phase Plant Cell Link Comp Genetics & Genomics Download PDF
Qu 2021 Simultaneous activation of the small conductance calcium-activated potassium current by acetylcholine and inhibition of sodium current by ajmaline cause J-wave syndrome in Langendorff-perfused rabbit ventricles Heart Rhythm Link Mathematical Biology Download PDF
Qu 2021 Sex-specific I KAS activation in rabbit ventricles with drug-induced QT prolongation Heart Rhythm Link Mathematical Biology Download PDF
Li, JJ 2021 scPNMF: sparse gene encoding of single cells to facilitate gene selection for targeted gene profiling Bioinformatics Link Comp Genetics & Genomics Download PDF
Li, JJ 2021 scDesign2: a transparent simulator that generates high-fidelity single-cell gene expression count data with gene correlations captured Genome Biology Link Comp Genetics & Genomics Download PDF
Wang, S 2021 Roadmap on biology in time varying environments Physical Biology Link Mathematical Biology Download PDF
Pasaniuc 2021 Reprogramming of the FOXA1 cistrome in treatment-emergent neuroendocrine prostate cancer Nature Communications Link Comp Genetics & Genomics Download PDF
Bell 2021 Reducing Emergency Department Visits Among Patients With Diabetes by Embedding Clinical Pharmacists in the Primary Care Teams Medical Care Link Medical Informatics Download PDF
Pasaniuc 2021 Quantifying the contribution of dominance deviation effects to complex trait variation in biobank-scale data American Journal of Human Genetics Link Comp Genetics & Genomics Download PDF
Sankararaman 2021 Quantifying the contribution of dominance deviation effects to complex trait variation in biobank-scale data American Journal of Human Genetics Link Comp Genetics & Genomics Download PDF
Hoffmann 2021 Quantifying information accumulation encoded in the dynamics of biochemical signaling Nature Communications Link Mathematical Biology Download PDF
Li, JJ 2021 PseudotimeDE: inference of differential gene expression along cell pseudotime with well-calibrated p-values from single-cell RNA sequencing data Genome Biology Link Comp Genetics & Genomics Download PDF
Bell 2021 Privacy-protecting, reliable response data discovery using COVID-19 patient observations Journal of the American Medical Informatics Association Link Medical Informatics Download PDF
Bell 2021 Primary nonadherence to statin medications: Survey of patient perspectives Preventive Medicine Reports Link Medical Informatics Download PDF
Garfinkel 2021 Predicting wet age-related macular degeneration (AMD) using DARC (detecting apoptosing retinal cells) AI (artificial intelligence) technology Expert Review of Molecular Diagnostics Link Systems & Synthetic Biology Download PDF
Pasaniuc 2021 Pre-existing conditions in Hispanics/Latinxs that are COVID-19 risk factors iScience Link Comp Genetics & Genomics Download PDF
Pasaniuc 2021 Pipeline for Analyzing Activity of Metabolic Pathways in Planktonic Communities Using Metatranscriptomic Data Journal of Computational Biology Link Comp Genetics & Genomics Download PDF
Arboleda 2021 Novel variants in KAT6B spectrum of disorders expand our knowledge of clinical manifestations and molecular mechanisms Molecular Genetics & Genomics Medicine Link Comp Genetics & Genomics Download PDF
Hoffmann 2021 NF-κB dynamics determine the stimulus specificity of epigenomic reprogramming in macrophages Science Link Systems & Synthetic Biology Download PDF
Li, JJ 2021 Network Modeling in Biology: Statistical Methods for Gene and Brain Networks Statistical Science Link Comp Genetics & Genomics Download PDF
Wang, S 2021 Naturally evolvable antibody affinity may be physically limited Editorial Link Mathematical Biology Download PDF
Pasaniuc 2021 Multitrait transcriptome-wide association study (TWAS) tests Genetic Epidemiology Link Comp Genetics & Genomics Download PDF
Qu 2021 Mitochondrial depolarization promotes calcium alternans: Mechanistic insights from a ventricular myocyte model PLoS Computational Biology Link Mathematical Biology Download PDF
Graeber 2021 Metabolic reprogramming and epigenetic changes of vital organs in SARS-CoV-2-induced systemic toxicity JCI Insight Link Systems & Synthetic Biology Download PDF
Qu 2021 Mechanisms of Premature Ventricular Complexes Caused by QT Prolongation Biophysical Journal Link Mathematical Biology Download PDF
Zaitlen 2021 Mechanisms of phase-3 early afterdepolarizations and triggered activities in ventricular myocyte models Physiology Reports Link Mathematical Biology Download PDF
Li, JJ 2021 mbImpute: an accurate and robust imputation method for microbiome data Genome Biology Link Comp Genetics & Genomics Download PDF
Chou 2021 Mathematical Models of Blood-Brain Barrier Transport of Monoclonal Antibodies Targeting the Transferrin Receptor and the Insulin Receptor Pharmaceuticals Link Mathematical Biology Download PDF
Arboleda 2021 Massively scaled-up testing for SARS-CoV-2 RNA via next-generation sequencing of pooled and barcoded nasal and saliva samples Nature Biomedical Engineering Link Comp Genetics & Genomics Download PDF
Kruglyak 2021 Massively scaled-up testing for SARS-CoV-2 RNA via next-generation sequencing of pooled and barcoded nasal and saliva samples Nature Biomedical Engineering Link Comp Genetics & Genomics Download PDF
Pasaniuc 2021 Mapping the human genetic architecture of COVID-19 Nature Link Comp Genetics & Genomics Download PDF
Zaitlen 2021 Life and death saddles in the heart Physical Review E. Link Mathematical Biology Download PDF
Pasaniuc 2021 Leveraging expression from multiple tissues using sparse canonical correlation analysis and aggregate tests improves the power of transcriptome-wide association studies PLoS Genetics Link Comp Genetics & Genomics Download PDF
Pasaniuc 2021 Leveraging eQTLs to identify individual-level tissue of interest for a complex trait PLoS Computational Biology Link Comp Genetics & Genomics Download PDF
Ernst 2021 Learning a genome-wide score of human-mouse conservation at the functional genomics level Nature Communications Link Comp Genetics & Genomics Download PDF
Pasaniuc 2021 Large-scale cross-cancer fine-mapping of the 5p15.33 region reveals multiple independent signals HGG Advances Link Comp Genetics & Genomics Download PDF
Chou 2021 Kinetic theory for structured populations: application to stochastic sizer-timer models of cell proliferation Journal of Physics Link Mathematical Biology Download PDF
Wollman 2021 Joint cell segmentation and cell type annotation for spatial transcriptomics Molecular Systems Biology Link Systems & Synthetic Biology Download PDF
Pasaniuc 2021 Integrative genomic analyses identify susceptibility genes underlying COVID-19 hospitalization Nature Communications Link Comp Genetics & Genomics Download PDF
Jamshidi 2021 Inhibition of mitochondrial complex II in neuronal cells triggers unique pathways culminating in autophagy with implications for neurodegeneration Scientific Reports Link Systems & Synthetic Biology Download PDF
Halperin 2021 Imputation of the continuous arterial line blood pressure waveform from non-invasive measurements using deep learning Scientific Reports Link Comp Genetics & Genomics Download PDF
Bigham 2021 Identifying adaptive alleles in the human genome: from selection mapping to functional validation Human Genetics Link Comp Genetics & Genomics Download PDF
Bigham 2021 High-altitude deer mouse hypoxia-inducible factor-2α shows defective interaction with CREB-binding protein Journal of Biological Chemistry Link Comp Genetics & Genomics Download PDF
Bigham 2021 Genome-Wide Epigenetic Signatures of Adaptive Developmental Plasticity in the Andes Genome Biology and Evolution Link Comp Genetics & Genomics Download PDF
Hsu 2021 Generalizability and Transportability of the National Lung Screening Trial data: Extending trial results to different populations Cancer Epidemiology, Biomarkers & Prevention Link Medical Informatics Download PDF
Pasaniuc 2021 Gene Expression Imputation Across Multiple Tissue Types Provides Insight Into the Genetic Architecture of Frontotemporal Dementia and Its Clinical Subtypes Biological Psychiatry Link Comp Genetics & Genomics Download PDF
Arboleda 2021 From chemoproteomic-detected amino acids to genomic coordinates: insights into precise multi-omic data integration Molecular Systems Biology Link Comp Genetics & Genomics Download PDF
Pellegrini 2021 Extracellular traps released by antimicrobial TH17 cells contribute to host defense The Journal of clinical investigation Link Comp Genetics & Genomics Download PDF
Hsu 2021 Experiment Selection in Meta-Analytic Piecemeal Causal Discovery IEEE Access Link Medical Informatics Download PDF
Geschwind 2021 Evolutionary conservation and divergence of the human brain transcriptome Genome Biology Link Comp Genetics & Genomics Download PDF
Franco 2021 Dynamic self-assembly of compartmentalized DNA nanotubes Nature Communications Link Systems & Synthetic Biology Download PDF
Zaitlen 2021 Disentangling selection on genetically correlated polygenic traits via whole-genome genealogies American Journal of Human Genetics Link Comp Genetics & Genomics Download PDF
Zaitlen 2021 Comprehensive cell type decomposition of circulating cell-free DNA with CelFiE Nature Communications Link Comp Genetics & Genomics Download PDF
Bell 2021 Comparative Effectiveness of Aspirin Dosing in Cardiovascular Disease The New England Journal of Medicine Link Medical Informatics Download PDF
Geschwind 2021 Coexpression network architecture reveals the brain-wide and multiregional basis of disease susceptibility Nature Neuroscience Link Comp Genetics & Genomics Download PDF
Wang, S 2021 Coevolutionary transitions emerging from flexible molecular recognition and eco-evolutionary feedback iScience Link Mathematical Biology Download PDF
Pellegrini 2021 Cell-free DNA Methylation and Transcriptomic Signature Prediction of Pregnancies with Adverse Outcomes Epigenetics Link Comp Genetics & Genomics Download PDF
Pasaniuc 2021 CDK4/6 inhibition reprograms the breast cancer enhancer landscape by stimulating AP-1 transcriptional activity Nature Cancer Link Comp Genetics & Genomics Download PDF
Savage 2021 Branching principles of animal and plant networks identified by combining extensive data, machine learning and modelling J R Soc Interface Link Mathematical Biology Download PDF
Pellegrini 2021 BiSulfite Bolt: A bisulfite sequencing analysis platform Gigascience Link Comp Genetics & Genomics Download PDF
Halperin 2021 Automated identification of clinical features from sparsely annotated 3-dimensional medical imaging NPJ Digital Medicine Link Comp Genetics & Genomics Download PDF
Hsu 2021 Automated identification and assignment of colonoscopy surveillance recommendations for individuals with colorectal polyps Gastrointestinal Endoscopy Link Medical Informatics Download PDF
Hsu 2021 Association of Inclusion of More Black Individuals in Lung Cancer Screening With Reduced Mortality Jama Network Open Link Medical Informatics Download PDF
Kruglyak 2021 Ancient balancing selection maintains incompatible versions of the galactose pathway in yeast Science Link Comp Genetics & Genomics Download PDF
Xiao 2021 Allele-specific alternative splicing and its functional genetic variants in human tissues Genome Researchh Link Comp Genetics & Genomics Download PDF
Wang, S 2021 Aging-induced fragility of the immune system Journal of Theoretical Biology Link Mathematical Biology Download PDF
Sankararaman 2021 Advancing admixture graph estimation via maximum likelihood network orientation Bioinformatics Link Comp Genetics & Genomics Download PDF
Qu 2021 Activation of TRPC (Transient Receptor Potential Canonical) Channel Currents in Iron Overloaded Cardiac Myocytes Circulation: Arrhythmia and Electrophysiology Link Mathematical Biology Download PDF
Pasaniuc 2021 A two-step approach to testing overall effect of gene-environment interaction for multiple phenotypes Bioinformatics Link Comp Genetics & Genomics Download PDF
Boutros 2021 A practical guide to cancer subclonal reconstruction from DNA sequencing Nature Methods Link Comp Genetics & Genomics Download PDF
Zaitlen 2021 A model and test for coordinated polygenic epistasis in complex traits PNAS Link Comp Genetics & Genomics Download PDF
Pinter-Wollman 2021 A guide to choosing and implementing reference models for social network analysis Biological Reviews Link Mathematical Biology Download PDF
Chou 2021 A frequency-dependent p-adaptive technique for spectral methods Journal of Computational Physics Link Mathematical Biology Download PDF
Chou 2020 Why case fatality ratios can be misleading: individual- and population-based mortality estimates and factors influencing them Physical Biology Link Mathematical Biology Download PDF
Savage 2020 Unraveling why we sleep: Quantitative analysis reveals abrupt transition from neural reorganization to repair in early development Science Advances Link Mathematical Biology Download PDF
Wang, S 2020 Tuning environmental timescales to evolve and maintain generalists PNAS Link Mathematical Biology Download PDF
Arnold 2020 Towards Heterogeneous Information Fusion: Bipartite Graph Convolutional Networks for In Silico Drug Repurposing Intelligent Systems for Molecular Biology (ISMB) Link Medical Informatics Download PDF
Coller 2020 Towards a Machine-Learning-Assisted Dielectric Sensing Platform for Point-of-Care Wound Monitoring IEEE Link Medical Informatics Download PDF
Bell 2020 The Impact of Resident Holdover Admissions on Length of Hospital Stay and Risk of Transfer to an Intensive Care Unit Journal of patient safety Link Medical Informatics Download PDF
Pellegrini 2020 The Epigenetic Pacemaker: modeling epigenetic states under an evolutionary framework Bioinformatics Link Comp Genetics & Genomics Download PDF
Sehl 2020 The Effects of Anti-retroviral Therapy on Epigenetic Age Acceleration Observed in HIV-1-infected Adults Pathogens & Immunity Link Mathematical Biology Download PDF
Sehl 2020 The acute effects of adjuvant radiation and chemotherapy on peripheral blood epigenetic age in early stage breast cancer patients NPJ Breast Cancer Link Mathematical Biology Download PDF
Geschwind 2020 Tau Pathology Drives Dementia Risk-Associated Gene Networks toward Chronic Inflammatory States and Immunosuppression Cell Reports Link Comp Genetics & Genomics Download PDF
Xiao 2020 Statistical inference of differential RNA-editing sites from RNA-sequencing data by hierarchical modeling Bioinformatics Link Comp Genetics & Genomics Download PDF
Li, JJ 2020 Statistical Hypothesis Testing versus Machine Learning Binary Classification: Distinctions and Guidelines CellPress Patterns Link Comp Genetics & Genomics Download PDF
Yang 2020 Single-cell Study of Two Rat Models of Pulmonary Arterial Hypertension Reveals Connections to Human Pathobiology and Drug Repositioning American Journal of Respiratory and Critical Care Medicine Link Comp Genetics & Genomics Download PDF
Venugopal 2020 Single-cell RNA-seq analysis of the brainstem of mutant SOD1 mice reveals perturbed cell types and pathways of amyotrophic lateral sclerosis Neurobiology of Disease Link Systems & Synthetic Biology Download PDF
Garfinkel 2020 Shaping Waves of Bone Morphogenetic Protein Inhibition During Vascular Growth Circulation Research Link Systems & Synthetic Biology Download PDF
Wang, S 2020 Shaping Polyclonal Responses via Antigen-Mediated Antibody Interference iScience Link Mathematical Biology Download PDF
Boutros 2020 Sex differences in oncogenic mutational processes Nature Communications Link Comp Genetics & Genomics Download PDF
Wilson 2020 Scientific considerations for global drug development Science Translational Medicine Link Systems & Synthetic Biology Download PDF
Sankararaman 2020 Scalable probabilistic PCA for large-scale genetic variation data PLoS Genetics Link Comp Genetics & Genomics Download PDF
Xiao 2020 RNA editing in cancer impacts mRNA abundance in immune response pathways Genome Biology Link Comp Genetics & Genomics Download PDF
Garfinkel 2020 Redundancy and multifunctionality among spinal locomotor networks Journal of Neurophysiology Link Systems & Synthetic Biology Download PDF
Sankararaman 2020 Recovering signals of ghost archaic introgression in African populations Science Advances Link Comp Genetics & Genomics Download PDF
Zhou 2020 Rapid diagnosis and comprehensive bacteria profiling of sepsis based on cell-free DNA Journal of Translational Medicine Link Medical Informatics Download PDF
Chou 2020 PDE models of adder mechanisms in cellular proliferations Society for Industrial and Applied Mathematics Link Mathematical Biology Download PDF
Pinter-Wollman 2020 Observing the unwatchable: Integrating automated sensing, naturalistic observations and animal social network analysis in the age of big data Journal of Animal Ecology Link Mathematical Biology Download PDF
Yang 2020 Multi-tissue Multi-omics Systems Biology of Complex Diseases Trends in Molecular Medicine Link Comp Genetics & Genomics Download PDF
Zaitlen 2020 Modeling epistasis in mice and yeast using the proportion of two or more distinct genetic backgrounds: Evidence for “polygenic epistasis” PLoS Genetics Link Comp Genetics & Genomics Download PDF
Jamshidi 2020 Metabolome Changes during In Vivo Red Cell Aging Reveal Disruption of Key Metabolic Pathways iScience Link Systems & Synthetic Biology Download PDF
Coller 2020 Intron retention is a robust marker of intertumoral heterogeneity in pancreatic ductal adenocarcinoma NPJ Genomic Medicine Link Systems & Synthetic Biology Download PDF
Coller 2020 Intron retention is a robust marker of intertumoral heterogeneity in pancreatic ductal adenocarcinoma NPJ Genomic Medicine Link Systems & Synthetic Biology Download PDF
Pellegrini 2020 Interactions between core histone marks and DNA methyltransferases predict DNA methylation patterns observed in human cells and tissues Epigenetics Link Comp Genetics & Genomics Download PDF
Askary 2020 In situ readout of DNA barcodes and single base edits facilitated by in vitro transcription Nature Biotechnology Link Systems & Synthetic Biology Download PDF
Bell 2020 Impact of a “Chart Closure” Hard Stop Alert on Prescribing for Elevated Blood Pressures Among Patients With Diabetes: Quasi-Experimental Study JMIR medical informatics Link Medical Informatics Download PDF
Ernst 2020 Identification and characterization of constrained non-exonic bases lacking predictive epigenomic and transcription factor binding annotations Nature Communications Link Comp Genetics & Genomics Download PDF
Pinter-Wollman 2020 Heritable learning phenotypes drive collective cognition Link Mathematical Biology Download PDF
Zaitlen 2020 Genetic Influences on Disease Subtypes Annual Review of Genomics and Human Genetics Link Comp Genetics & Genomics Download PDF
Hoffmann 2020 Gene Regulatory Strategies that Decode the Duration of NFkB Dynamics Contribute to LPS- versus TNF-Specific Gene Expression Cell Systems Link Systems & Synthetic Biology Download PDF
Plath 2020 Female human primordial germ cells display X-chromosome dosage compensation despite the absence of X-inactivation Nature Cell Biology Link Systems & Synthetic Biology Download PDF
Xiao 2020 Extracellular microRNA 3’ end modification across diverse body fluids Epigenetics Link Comp Genetics & Genomics Download PDF
Xiao 2020 Expanded encyclopaedias of DNA elements in the human and mouse genomes Nature Link Comp Genetics & Genomics Download PDF
Lloyd-Smith 2020 Estimated effectiveness of symptom and risk screening to prevent the spread of COVID-19 eLife Link Medical Informatics Download PDF
Sankararaman 2020 Efficient variance components analysis across millions of genomes Nature Communications Link Comp Genetics & Genomics Download PDF
Li, JJ 2020 DORGE: Discovery of Oncogenes and tumoR suppressor genes using Genetic and Epigenetic features Science Advances Link Comp Genetics & Genomics Download PDF
Chou 2020 Diversity in Biology: definitions, quantification and models Physical Biology Link Mathematical Biology Download PDF
Boutros 2020 Divergent mutational processes distinguish hypoxic and normoxic tumours Nature Communications Link Comp Genetics & Genomics Download PDF
Hsu 2020 Discovering and interpreting transcriptomic drivers of imaging traits using neural networks Oxford Academic Link Medical Informatics Download PDF
Plath 2020 Direct Exposure to SARS-CoV-2 and Cigarette Smoke Increases Infection Severity and Alters the Stem Cell-Derived Airway Repair Response Cell Stem Cell Link Systems & Synthetic Biology Download PDF
Sul 2020 Contribution of common and rare variants to bipolar disorder susceptibility in extended pedigrees from population isolates Translational Psychiatry Link Comp Genetics & Genomics Download PDF
Ernst 2020 ConsHMM Atlas: conservation state annotations for major genomes and human genetic variation NAR Genomics and Bioinformatics Link Comp Genetics & Genomics Download PDF
Pellegrini 2020 Cell-free DNA Methylation and Transcriptomic Signature Prediction of Pregnancies with Adverse Outcomes Epigenetics Link Comp Genetics & Genomics Download PDF
Pellegrini 2020 Cardiac fibroblast proliferation rates and collagen expression mature early and are unaltered with advancing age JCI Insight Link Comp Genetics & Genomics Download PDF
Li, JJ 2020 Bipartite Tight Spectral Clustering (BiTSC) Algorithm for Identifying Conserved Gene Co-clusters in Two Species Bioinformatics Link Comp Genetics & Genomics Download PDF
Bui 2020 Biomedical Real-time Health Evaluation (BREATHE): Toward an mHealth informatics platform JAMIA Open Link Medical Informatics Download PDF
Li, JJ 2020 Benchmarking Computational Doublet-Detection Methods for Single-Cell RNA Sequencing Data Cell Systems Link Comp Genetics & Genomics Download PDF
Bell 2020 Association of a Care Bundle for Early Sepsis Management With Mortality Among Patients With Hospital-Onset or Community-Onset Sepsis JAMA Internal Medicine Link Medical Informatics Download PDF
Ernst 2020 An integrative approach for fine-mapping chromatin interactions Bioinformatics Link Comp Genetics & Genomics Download PDF
Hoffmann 2020 An incoherent feedforward loop interprets NFκB/RelA dynamics to determine TNF-induced necroptosis decisions Molecular Systems Biology Link Systems & Synthetic Biology Download PDF
Wilson 2020 An in vitro quantitative systems pharmacology approach for deconvolving mechanisms of drug-induced, multilineage cytopenias PLoS Computational Biology Link Systems & Synthetic Biology Download PDF
Lloyd-Smith 2020 Aerosol and surface stability of SARS-CoV-2 as compared with SARS-CoV-1 New England Journal of Medicine Link Systems & Synthetic Biology Download PDF
Pellegrini 2020 ACTINN: automated identification of cell types in single cell RNA sequencing Bioinformatics Link Medical Informatics Download PDF
Halperin 2020 Accurate estimation of cell composition in bulk expression through robust integration of single-cell information Nature Communications Link Comp Genetics & Genomics Download PDF
Bell 2020 Accuracy of an Electronic Health Record Patient Linkage Module Evaluated between Neighboring Academic Health Care Centers Applied clinical informatics Link Medical Informatics Download PDF
Suchard 2020 Accommodating individual travel history and unsampled diversity in Bayesian phylogeographic inference of SARS-CoV-2 Nature Communications Link Mathematical Biology Download PDF
Sankararaman 2020 A Unifying Framework for Imputing Summary Statistics in Genome-Wide Association Studies Journal of Computational Biology Link Comp Genetics & Genomics Download PDF
Plath 2020 A protein assembly mediates Xist localization and gene silencing Nature Link Systems & Synthetic Biology Download PDF
Plath 2020 A Human Skeletal Muscle Atlas Identifies the Trajectories of Stem and Progenitor Cells across Development and from Human Pluripotent Stem Cells Cell Stem Cell Link Systems & Synthetic Biology Download PDF
Boutros 2020 A community effort to create standards for evaluating tumor subclonal reconstruction Nature Biotechnology Link Medical Informatics Download PDF
Li, JJ 2019 Word and sentence embedding tools to measure semantic similarity of Gene Ontology terms by their definitions Journal of Computational Biology Link Medical Informatics Download PDF
Xiao 2019 Widespread RNA Editing Dysregulation in Brains From Autistic Individuals Nature Neuroscience Link Comp Genetics & Genomics Download PDF
Bui 2019 Using sequential decision making to improve lung cancer screening performance IEEE Access Link Medical Informatics Download PDF
Wang, S 2019 Trait-space patterning and the role of feedback in antigen-immunity coevolution coevolution Physical Review Research Link Mathematical Biology Download PDF
Pinter-Wollman 2019 The use of multilayer network analysis in animal behaviour Animal Behavior Link Mathematical Biology Download PDF
Boutros 2019 The Proteogenomic Landscape of Curable Prostate Cancer Cancel Cell Link Comp Genetics & Genomics Download PDF
Ernst 2019 Systematic discovery of conservation states for single-nucleotide annotation of the human genome Communications Biology Link Comp Genetics & Genomics Download PDF
Hoffmann 2019 Substrate complex competition – a regulatory motif that allows NFkB RelA to license but not amplify NFkB/RelA PNAS Link Mathematical Biology Download PDF
Savage 2019 Stressor interaction networks suggest antibiotic resistance co-opted from stress responses to temperature The ISME Journal Link Mathematical Biology Download PDF
Horvath 2019 Reversal of epigenetic aging and immunosenescent trends in humans Aging Cell Link Comp Genetics & Genomics Download PDF
Venugopal 2019 Resurgent Na+ Current Offers Noise Modulation in Bursting Neurons PLoS Link Systems & Synthetic Biology Download PDF
Coller 2019 RECK isoforms differentially regulate fibroblast migration by modulating tubulin post-translational modifications BBRC Link Systems & Synthetic Biology Download PDF
Kruglyak 2019 Rare variants contribute disproportionately to quantitative trait variation in yeast eLIFE Link Comp Genetics & Genomics Download PDF
Li, JJ 2019 Quantitative principles of cis-translational control by general mRNA sequence features in eukaryotes Genome Biology Link Systems & Synthetic Biology Download PDF
Yang 2019 Prenatal Bisphenol A Exposure in Mice Induces Multi-tissue Multi-omics Disruptions Linking to Cardiometabolic Disorders Endocrinology Link Comp Genetics & Genomics Download PDF
DiStefano III 2019 Predicting Optimal Combination LT4 + LT3 Therapy for Hypothyroidism Based on Residual Thyroid Function Frontiers in Endocrinology Link Mathematical Biology Download PDF
Garud 2019 Population genetics in the Human Microbiome Trends in Genetics Link Comp Genetics & Genomics Download PDF
Wilson 2019 PathFXweb: a web application for identifying drug safety and efficacy phenotypes Bioinformatics Link Systems & Synthetic Biology Download PDF
Graeber 2019 Pan-cancer Convergence to a Small-Cell Neuroendocrine Phenotype that Shares Susceptibilities with Hematological Malignancies Cancer Cell Link Comp Genetics & Genomics Download PDF
Xiao 2019 mountainClimber Identifies Alternative Transcription Start and Polyadenylation Sites in RNA-Seq Cell Systems Link Comp Genetics & Genomics Download PDF
Boutros 2019 Molecular landmarks of tumor hypoxia across cancer types Nature Genetics Link Medical Informatics Download PDF
Halperin 2019 Modeling the temporal dynamics of the gut microbial community in adults and infants PLoS Computational Biology Link Systems & Synthetic Biology Download PDF
Lloyd-Smith 2019 Mechanistic dose-response modelling of animal challenge data shows that intact skin is a crucial barrier to leptospiral infection Philosophical Transactions of the Royal Society B Link Mathematical Biology Download PDF
Li, JJ 2019 Matched Bipartite Block Model with Covariates Journal of Machine Learning Research Link Comp Genetics & Genomics Download PDF
Eskin 2019 Leveraging allelic imbalance to refine fine-mapping for eQTL studies PLoS Genetics Link Comp Genetics & Genomics Download PDF
Sul 2019 Interrogating the Genetic Determinants of Tourette’s Syndrome and Other Tic Disorders Through Genome-Wide Association Studies The American Journal of Psychiatry Link Comp Genetics & Genomics Download PDF
Geschwind 2019 Inherited and De Novo Genetic Risk for Autism Impacts Shared Networks Cell Link Systems & Synthetic Biology Download PDF
Hoffmann 2019 Identifying determinants of persistent MRSA bacteremia using mathematical modeling PLoS Comp Link Mathematical Biology Download PDF
Geschwind 2019 Human evolved regulatory elements modulate genes involved in cortical expansion and neurodevelopmental disease susceptibility Nature Communications Link Comp Genetics & Genomics Download PDF
Pellegrini 2019 Human epigenetic ageing is logarithmic with time across the entire lifespan Epigenetics Link Comp Genetics & Genomics Download PDF
Kruglyak 2019 Highly parallel genome variant engineering with CRISPR-Cas9 Nature Genetics Link Systems & Synthetic Biology Download PDF
Boutros 2019 Genome-wide germline correlates of the epigenetic landscape of prostate cancer Nature Medicine Link Comp Genetics & Genomics Download PDF
Geschwind 2019 Genetic Control of Expression and Splicing in Developing Human Brain Informs Disease Mechanisms Cell Link Comp Genetics & Genomics Download PDF
Sul 2019 ForestQC: Quality control on genetic variants from next-generation sequencing data using random forest. PLoS Computational Biology Link Comp Genetics & Genomics Download PDF
Halperin 2019 FEAST: fast expectation-maximization for microbial source tracking Nature Methods Link Comp Genetics & Genomics Download PDF
Hsu 2019 External validation and recalibration of the Brock model to predict probability of cancer in pulmonary nodules using NLST data BMJ Journals Link Medical Informatics Download PDF
Wang, S 2019 Evolving generalists in switching rugged landscapes PLoS Computational Biology Link Mathematical Biology Download PDF
Garud 2019 Evolutionary dynamics of bacteria in the gut microbiome within and across hosts Plos Biology Link Comp Genetics & Genomics Download PDF
Li, JJ 2019 EpiAlign: an alignment-based bioinformatic tool for comparing chromatin state sequences Nucleic Acids Research Link Comp Genetics & Genomics Download PDF
Horvath 2019 DNA methylation GrimAge strongly predicts lifespan and healthspan Aging Cell Link Comp Genetics & Genomics Download PDF
Pellegrini 2019 DNA Methylation Changes More Slowly Than Physiological States in Response to Weight Loss in Genetically Diverse Mouse Strains Front Endocrinol Link Comp Genetics & Genomics Download PDF
Alber 2019 De Novo Structural Pattern Mining in Cellular Electron Cryotomograms Structure Link Systems & Synthetic Biology Download PDF
Halperin 2019 CONFINED: distinguishing biological from technical sources of variation by leveraging multiple methylation datasets Genome Biology Link Comp Genetics & Genomics Download PDF
Suchard 2019 Comprehensive comparative effectiveness and safety of first-line antihypertensive drug classes: a systematic, multinational, large-scale analysis Lancet Link Mathematical Biology Download PDF
Bell 2019 Clinical Characteristics of and Risk Factors for Chronic Kidney Disease Among Adults and Children: An Analysis of the CURE-CKD Registry JAMA Network Open Link Medical Informatics Download PDF
Savage 2019 Climate shapes and shifts functional biodiversity in forests worldwide PNAS Link Mathematical Biology Download PDF
Venugopal 2019 Circuit-Specific Early Impairment of Proprioceptive Sensory Neurons in the SOD1 G93A Mouse Model for ALS The Journal of Neuroscience Link Systems & Synthetic Biology Download PDF
Lloyd-Smith 2019 Childhood immune imprinting to influenza A shapes birth year-specific risk during seasonal H1N1 and H3N2 epidemics PLoS Pathogens Link Mathematical Biology Download PDF
Halperin 2019 Cell-type-specific resolution epigenetics without the need for cell sorting or single-cell biology Nature Communications Link Comp Genetics & Genomics Download PDF
Hsu 2019 An interpretable deep hierarchical semantic convolutional neural network for lung nodule malignancy classification Expert Systems with Applications Link Medical Informatics Download PDF
Halperin 2019 An automated machine learning-based model predicts postoperative mortality using readily-extractable preoperative electronic health record data BJA Link Comp Genetics & Genomics Download PDF
Xiao 2019 Allele-specific Binding of RNA-binding Proteins Reveals Functional Genetic Variants in the RNA Nature Communications Link Systems & Synthetic Biology Download PDF
Li, JJ 2019 AIDE: annotation-assisted isoform discovery with high precision Genome Research Link Comp Genetics & Genomics Download PDF
Li, JJ 2019 A statistical simulator scDesign for rational scRNA-seq experimental design Bioinformatics Link Systems & Synthetic Biology Download PDF
Sankararaman 2019 A statistical model for reference-free inference of archaic local ancestry PLoS Genetics Link Comp Genetics & Genomics Download PDF
Geschwind 2019 A Single-Cell Transcriptomic Atlas of Human Neocortical Development during Mid-gestation Neuron Link Systems & Synthetic Biology Download PDF
Hoffmann 2019 A regulatory circuit controlling the Dynamics of NFkB cRel transitions B-cells from proliferation to plasma cell differentiation Immunity Link Systems & Synthetic Biology Download PDF
Chou 2019 A Mathematical Model of the Effects of Aging on Naive T Cell Populations and Diversity Society for Mathematical Biology Link Mathematical Biology Download PDF
Arnold 2019 A Machine Learning Approach to Classifying Self-Reported Health Status in a cohort of Patients with Heart Disease using Activity Tracker Data IEEE Journal of Biomedical and Health Informatics Link Medical Informatics Download PDF
Arnold 2019 A Machine Learning Approach for Classifying Ischemic Stroke Onset Time from Imaging IEEE Transactions on Medical Imaging Link Medical Informatics Download PDF
Pinter-Wollman 2018 The impact of the built environment on health behaviours and disease transmission in social systems Philosophical Transactions B Link Systems & Synthetic Biology Download PDF
Pinter-Wollman 2018 Social interactions shape individual and collective personality in social spiders Proceedings B Link Mathematical Biology Download PDF
Yang 2018 Single cell molecular alterations reveal target cells and pathways of concussive brain injury Nature Communications Link Comp Genetics & Genomics Download PDF
Hsu 2018 Researchmaps.org for integrating and planning research PLoS One Link Medical Informatics Download PDF
Graeber 2018 Reprogramming normal human epithelial tissues to a common, lethal neuroendocrine cancer lineage Science Link Systems & Synthetic Biology Download PDF
Coller 2018 RECK isoforms have opposing effects on cell migration Molecular Biology of the Cell Link Systems & Synthetic Biology Download PDF
Alber 2018 Producing genome structure populations with the dynamic and automated PGS software Nature Protocols Link Systems & Synthetic Biology Download PDF
Bell 2018 Primary Care Provider Adherence to an Alert for Intensification of Diabetes Blood Pressure Medications Before and After the Addition of a “Chart Closure” Hard Stop Journal of American Medical Informatics Association Link Medical Informatics Download PDF
Savage 2018 Prevalence and patterns of higher-order drug interactions in Escherichia coli NPJ Systems Biology and Applications Link Systems & Synthetic Biology Download PDF
Boutros 2018 Pathway-based subnetworks enable cross-disease biomarker discovery Nature Communications Link Medical Informatics Download PDF
Wilson 2018 PathFX provides mechanistic insights into drug efficacy and safety for regulatory review and therapeutic development PLoS Computational Biology Link Systems & Synthetic Biology Download PDF
Arnold 2018 Path R-CNN for Prostate Cancer Diagnosis and Gleason Grading of Histological Images IEEE Transactions on Medical Imaging Link Medical Informatics Download PDF
Hoffmann 2018 Nongenetic origins of cell-to-cell variability in B lymphocyte proliferation PNAS Link Systems & Synthetic Biology Download PDF
Li, JJ 2018 Neyman-Pearson classification algorithms and NP receiver operating characteristics Science Advances Link Comp Genetics & Genomics Download PDF
Graeber 2018 Multi-stage differentiation defines melanoma subtypes with differential vulnerability to drug-induced iron-dependent oxidative stress Cancer Cell Link Comp Genetics & Genomics Download PDF
Li, JJ 2018 MSIQ: Joint modeling of multiple RNA-seq samples for accurate isoform quantification Annals of Applied Statistics Link Systems & Synthetic Biology Download PDF
Chou 2018 Modeling large fluctuations of thousands of clones during hematopoiesis: the role of stem cell self-renewal and bursty progenitor dynamics in rhesus macaque PLoS Computational Biology Link Mathematical Biology Download PDF
Li, JJ 2018 Modeling and analysis of RNA-seq data: a review from a statistical perspective Quantitative Biology Link Systems & Synthetic Biology Download PDF
Hoffmann 2018 Mathematical modeling identifies potential gene structure determinants of co-transcriptional control of alternative pre-mRNA splicing NAR Link Mathematical Biology Download PDF
Hsu 2018 Longitudinal patterns in clinical and imaging measurements predict residual survival in glioblastoma patients Scientific Reports Link Medical Informatics Download PDF
Pinter-Wollman 2018 Interdisciplinary approaches for uncovering the impacts of architecture on collective behaviour Philosophical Transactions B Link Mathematical Biology Download PDF
Coller 2018 Integrative analysis of the inter-tumoral heterogeneity of triple-negative breast cancer Scientific Reports Link Systems & Synthetic Biology Download PDF
Yang 2018 Integration of Multi-omics Data from Mouse Diversity Panel Highlights Mitochondrial Dysfunction in Non-Alcoholic Fatty Liver Disease Cell Systems Link Comp Genetics & Genomics Download PDF
Bell 2018 Improving admission medication reconciliation with pharmacists or pharmacy technicians in the emergency department; a randomized controlled trial BMJ Quality and Safety Link Medical Informatics Download PDF
Horvath 2018 GWAS of epigenetic aging rates in blood reveals a critical role for TERT Nature Communications Link Comp Genetics & Genomics Download PDF
Kruglyak 2018 Genetics of trans-regulatory variation in gene expression eLIFE Link Comp Genetics & Genomics Download PDF
Jamshidi 2018 Functional interrogation of Plasmodium genus metabolism identifies species- and stage-specific differences in nutrient essentiality and drug targeting PLOS Computational Biology Link Systems & Synthetic Biology Download PDF
Chou 2018 Exact steady-state distributions of multispecies birth-death-immigration processes: effects of mutations and carrying capacity on diversity Journal of Statistical Physics Link Mathematical Biology Download PDF
Pellegrini 2018 Epigenome-wide association in adipose tissue from the METSIM cohort Human Molecular Genetics Link Comp Genetics & Genomics Download PDF
Horvath 2018 DNA methylation-based biomarkers and the epigenetic clock theory of ageing Nature Reviews Genetics Link Comp Genetics & Genomics Download PDF
Meyer 2018 Dissecting FcγR Regulation through a Multivalent Binding Model Cell Systems Link Systems & Synthetic Biology Download PDF
Zhou 2018 Detecting early-warning signals of influenza outbreak based on dynamic network marker Journal of Cellular and Molecular Medicine Link Medical Informatics Download PDF
Geschwind 2018 Comprehensive functional genomic resource and integrative model for the human brain Science Link Systems & Synthetic Biology Download PDF
Ernst 2018 ChromTime: modeling spatio-temporal dynamics of chromatin marks Genome Biology Link Systems & Synthetic Biology Download PDF
Bell 2018 Characteristics of the National Applicant Pool for Clinical Informatics Fellowships (2016-2017) Proceedings of the AMIA Annual Symposium Link Medical Informatics Download PDF
Zhou 2018 CancerDetector: ultrasensitive and non-invasive cancer detection at the resolution of individual reads using cell-free DNA methylation sequencing data Oxford Academic Link Medical Informatics Download PDF
Pinter-Wollman 2018 Can multilayer networks advance animal behavior research Trends in Ecololy and Evolution Link Mathematical Biology Download PDF
Arnold 2018 An EM-based Semi-supervised Deep Learning Approach for Semantic Segmentation of Histopathological Images from Radical Prostatectomies Computerized Medical Imaging and Graphics Link Medical Informatics Download PDF
Li, JJ 2018 An accurate and robust imputation method scImpute for single-cell RNA-seq data Nature Communications Link Comp Genetics & Genomics Download PDF
Coller 2018 Alternative polyadenylation factors link cell cycle to migration Genome Biology Link Systems & Synthetic Biology Download PDF
Wang, S 2018 Active Tuning of Synaptic Patterns Enhances Immune Discrimination Physical Review Letters Link Mathematical Biology Download PDF
Pellegrini 2018 A multi-tissue full lifespan epigenetic clock for mice Aging Link Comp Genetics & Genomics Download PDF
Chou 2018 A Dynamical Bifurcation Model of Bipolar Disorder Based on Learned Expectation and Asymmetry in Mood Sensitivity Computational Psychiatry Link Mathematical Biology Download PDF
Li, JJ 2017 TROM: A Testing-Based Method for Finding Transcriptomic Similarity of Biological Samples Statistics in Biosciences Link Comp Genetics & Genomics Download PDF
Alber 2017 The three-dimensional genome organization of Drosophila melanogaster through data integration Genome Biology Link Systems & Synthetic Biology Download PDF
Jamshidi 2017 Systems biology analysis of drivers underlying hallmarks of cancer cell metabolism Scientific Reports Link Systems & Synthetic Biology Download PDF
Ernst 2017 Systematic Epigenomic Analysis Reveals Chromatin States Associated with Melanoma Progression Cell Reports Link Comp Genetics & Genomics Download PDF
Xiao 2017 Structure-mediated Modulation of mRNA Abundance by A-to-I Editing Nature Communications Link Comp Genetics & Genomics Download PDF
Yang 2017 Shared genetic regulatory networks for cardiovascular disease and type 2 diabetes in multiple populations of diverse ethnicities in the United States PLoS Genetics Link Comp Genetics & Genomics Download PDF
Graeber 2017 Recurrent patterns of DNA copy number alterations in tumors reflect metabolic selection pressures Molecular Systems Biology Link Comp Genetics & Genomics Download PDF
Li, JJ 2017 Quantitating translational control: mRNA abundance-dependent and independent contributions and the mRNA sequences that specify them Nucleic Acids Research Link Systems & Synthetic Biology Download PDF
Wang, S 2017 Optimal Sequential Immunization Can Focus Antibody Responses against Diversity Loss and Distraction PLoS Computational Biology Link Mathematical Biology Download PDF
Jamshidi 2017 Multiregional Radiogenomic Assessment of Prostate Microenvironments with Multiparametric MR Imaging and DNA Whole-Exome Sequencing of Prostate Glands with Adenocarcinoma Radiology Link Systems & Synthetic Biology Download PDF
Li, JJ 2017 Large-scale mapping of mammalian transcriptomes identifies conserved genes associated with different cell states Nucleic Acids Research Link Comp Genetics & Genomics Download PDF
Hoffmann 2017 Iterative modeling reveals sequential transcriptional control mechanisms Cell Systems Link Systems & Synthetic Biology Download PDF
DiStefano III 2017 DISTING: A web application for fast algorithmic computation of alternative indistinguishable linear compartmental models Computer Methods and Programs in Biomedicine Link Mathematical Biology Download PDF
Lloyd-Smith 2017 Detecting signals of chronic shedding to explain pathogen persistence: Leptospira interrogans in California sea lions as a case study Journal of Animal Ecology Link Mathematical Biology Download PDF
Li, JJ 2017 Correspondence of D. melanogaster and C. elegansdevelopmental stages revealed by alternative splicing characteristics of conserved exons BMC Genomics Link Systems & Synthetic Biology Download PDF
Ernst 2017 Cooperative Binding of Transcription Factors Orchestrates Reprogramming Cell Reports Link Systems & Synthetic Biology Download PDF
Zhou 2017 CancerLocator: non-invasive cancer diagnosis and tissue-of-origin prediction using methylation profiles of cell-free DNA Genome Biology Link Medical Informatics Download PDF
Kruglyak 2017 A maternal-effect selfish genetic element in Caenorhabditis elegans Science Link Comp Genetics & Genomics Download PDF
Kruglyak 2017 A genetic signature of the evolution of loss of flight in the Galapagos cormorant Science Link Comp Genetics & Genomics Download PDF
Distefano III 2016 THYROSIM App for Education and Research Predicts Potential Health Risks of Over-the-Counter Thyroid Supplements Thyroid Link Mathematical Biology Download PDF
Yang 2016 Systems Nutrigenomics Reveals Brain Gene Networks Linking Metabolic and Brain Disorders EBioMedicine Link Comp Genetics & Genomics Download PDF
Meyer 2016 Systems biology approaches to measure and model phenotypic heterogeneity in cancer Cancer Research Link Systems & Synthetic Biology Download PDF
Meyer 2016 Reduced Proteolytic Shedding of Receptor Tyrosine Kinases Is a Post-Translational Mechanism of Kinase Inhibitor Resistance Cancer Discovery Link Systems & Synthetic Biology Download PDF
Bui 2016 Prediction of lung cancer incidence on the LDCT arm of the National Lung Screening Trial: A dynamic Bayesian network Artif Intell Medicine Link Medical Informatics Download PDF
Lloyd-Smith 2016 Potent protection against H5N1 and H7N9 influenza via childhood hemagglutinin imprinting Science Link Mathematical Biology Download PDF
Alber 2016 Population-based 3D genome structure analysis reveals driving forces in spatial genome organization Proceedings of the National Academy of Sciences USA Link Systems & Synthetic Biology Download PDF
Li, JJ 2016 NMFP: a non-negative matrix factorization based preselection method to increase accuracy of identifying mRNA isoforms from RNA-seq data BMC Genomics Link Comp Genetics & Genomics Download PDF
Zhou 2016 Mining 3D genome structure populations identifies major factors governing the stability of regulatory communities Nature Communications Link Systems & Synthetic Biology Download PDF
Alber 2016 Mining 3D genome structure populations identifies major factors governing the stability of regulatory communities Nature Communications Link Systems & Synthetic Biology Download PDF
Meyer 2016 JNK Pathway Activation Modulates Acquired Resistance to EGFR/HER2-Targeted Therapies Cancer Research Link Systems & Synthetic Biology Download PDF
Sul 2016 Increasing generality and power of rare variant tests utilizing extended pedigrees AJHG Link Comp Genetics & Genomics Download PDF
Ernst 2016 Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions Nature Biotechnology Link Comp Genetics & Genomics Download PDF
Li, JJ 2016 Epigenome overlap measure (EPOM) for comparing tissue/cell types based on chromatin states BMC Genomics Link Comp Genetics & Genomics Download PDF
Garud 2016 Elevated linkage disequilibrium and signatures of soft sweeps are common in Drosophila melanogaster Genetics Link Comp Genetics & Genomics Download PDF
Savage 2016 Do Vascular Networks Branch Optimally or Randomly across Spatial Scales? PLOS Computational Biology Link Mathematical Biology Download PDF
Horvath 2016 An epigenetic clock analysis of race/ethnicity, sex, and coronary heart disease Genome Biology Link Comp Genetics & Genomics Download PDF
Xiao 2016 Alternative Splicing Modulated by Genetic Variants Demonstrates Accelerated Evolution Regulated by Highly Conserved Proteins Genome Research Link Comp Genetics & Genomics Download PDF
Chou 2016 A hierarchical kinetic theory of birth, death, and fission in age-structured interacting populations Journal of Statistical Physics Link Mathematical Biology Download PDF
Jamshidi 2015 The Radiogenomic Risk Score: Construction of a Prognostic Quantitative, Noninvasive Image-based Molecular Assay for Renal Cell Carcinoma Radiology Link Systems & Synthetic Biology Download PDF
Meyer 2015 The AXL Receptor is a Sensor of Ligand Spatial Heterogeneity Cell Systems Link Systems & Synthetic Biology Download PDF
Savage 2015 Testing Foundations of Biological Scaling Theory Using Automated Measurements of Vascular Networks PLoS Computational Biology Link Mathematical Biology Download PDF
Savage 2015 Scaling from traits to ecosystems: Developing a general Trait Driver Theory via integrating trait-based and metabolic scaling theories Advances in Ecological Research Link Mathematical Biology Download PDF
Jamshidi 2015 Personalized Whole-Cell Kinetic Models of Metabolism for Discovery in Genomics and Pharmacodynamics Cell Systems Link Systems & Synthetic Biology Download PDF
Wang, S 2015 Manipulating the Selection Forces during Affinity Maturation to Generate Cross-Reactive HIV Antibodies Cell Link Mathematical Biology Download PDF
Xiao 2015 Genome Sequence-Independent Identification of RNA Editing Sites Nature Methods Link Comp Genetics & Genomics Download PDF
Jamshidi 2015 Cell scale host-pathogen modeling: another branch in the evolution of constraint-based methods Frontiers in Microbiology Link Systems & Synthetic Biology Download PDF
Chou 2015 Bayesian Uncertainty Quantification for Bond Energies and Mobilities Using Path Integral Analysis Biophysical Journal Link Mathematical Biology Download PDF
Sul 2015 Accurate and fast multiple-testing correction in eQTL studies AJHG Link Comp Genetics & Genomics Download PDF
DiStefano III 2014 On Finding and Using Identifiable Parameter Combinations in Nonlinear Dynamic Systems Biology Models and COMBOS: A Novel Web Implementation PloS one Link Mathematical Biology Download PDF
Bui 2013 Imaging-based observational data-bases for clinical problem solving: The role of informatics J Am Med Inform Assoc Link Medical Informatics Download PDF
Bui 2012 Context-based electronic health records: Towards patient-specific healthcare IEEE Trans Inf Technol Biomed Link Medical Informatics Download PDF
DiStefano III 2011 Finding identifiable parameter combinations in nonlinear ODE models and the rational reparameterization of their input-output equations Math Biosciences Link Mathematical Biology Download PDF
DiStefano III 2010 Chronic exposure to Mn inhalation may have lasting effects: A physiologically-based toxicokinetic model in rats Toxicological & Environmental Chemistry Link Mathematical Biology Download PDF
DiStefano III 2009 An algorithm for finding globally identifiable parameter combinations of nonlinear ODE models using Gröbner Bases Mathematical Biosciences Link Mathematical Biology Download PDF