December 25The AD Knowledge Portal: an open-access platform for sharing data, tools, and results of aging and dementia research
December 22Evaluation of crowdsourced mortality prediction models as a framework for assessing AI in medicine
December 21Microbiome Preterm Birth DREAM Challenge: Crowdsourcing Machine Learning Approaches to Advance Preterm Birth Research
November 14The N3C governance ecosystem: a model socio-technical partnership for the future of collaborative analytics at scale
October 12PREPRINT: Microbiome-based risk prediction in incident heart failure: a community challenge
October 1Translational Research and Communities
September 17Laser capture microdissection transcriptome reveals spatiotemporal tissue gene expression patterns of M. truncatula roots responding to rhizobia
September 5Analysis and Visualization of Longitudinal Genomic and Clinical Data from the AACR Project GENIE Biopharma Collaborative in cBioPortal
August 21Bridging the rodent to human translational gap: Marmosets as model systems for the study of Alzheimer’s disease
August 9An Open Natural Language Processing (NLP) Framework for EHR-based Clinical Research: A Case Demonstration Using the National COVID Cohort Collaborative (N3C)
August 8Targeted recruitment and the role of choice in the engagement of youth in a randomised smartphone-based mental health study in India, South Africa, and the UK: results from the MindKind Study
July 27Concerning the eXclusion in human genomics: The choice of sex chromosome representation in the human genome drastically affects number of identified variants
July 17Federated benchmarking of medical artificial intelligence with MedPerf
July 10A framework for future national pediatric pandemic respiratory disease severity triage: The HHS pediatric COVID-19 data challenge
July 2PREPRINT: Characterization of covalent inhibitors that disrupt the interaction between the tandem SH2 domains of SYK and FCER1G phospho-ITAM
June 28PREPRINT: “The Brain Tumor Segmentation (BraTS) Challenge 2023: Brain MR Image Synthesis for Tumor Segmentation (BraSyn) “
June 19Evidencing the Impact of Web-Based Coproduction With Youth on Mental Health Research: Qualitative Findings From the MindKind Study
June 5PREPRINT: Evaluation of software impact designed for biomedical research: Are we measuring what’s meaningful?
June 1PREPRINT: “The Brain Tumor Segmentation (BraTS-METS) Challenge 2023: Brain Metastasis Segmentation on Pre-treatment MRI “
May 30PREPRINT: The Brain Tumor Segmentation (BraTS) Challenge 2023: Glioma Segmentation in Sub-Saharan Africa Patient Population (BraTS-Africa)
May 29Human microglia show unique transcriptional changes in Alzheimer’s disease
May 29Machine learning in rare disease
May 26PREPRINT: The Brain Tumor Segmentation (BraTS) Challenge 2023: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs)
May 17Open drug discovery in Alzheimer’s disease
May 12PREPRINT: “The ASNR-MICCAI Brain Tumor Segmentation (BraTS) Challenge 2023: Intracranial Meningioma “
May 8STOP-AD portal: Selecting the optimal pharmaceutical for preclinical drug testing in Alzheimer’s disease
April 21Genetic Subdivisions of Follicular Lymphoma Defined by Distinct Coding and non-coding Mutation Patterns
April 19Young people’s data governance preferences for their mental health data: MindKind Study findings from India, South Africa, and the United Kingdom
March 28Developing better digital health measures of Parkinson’s disease using free living data and a crowdsourced data analysis challenge
February 16Leveraging IP for AI governance
December 21Generalizable Long COVID Subtypes: Findings from the NIH N3C and RECOVER Programs
December 9A Multifaceted Benchmarking of Synthetic Electronic Health Record Generation Models
December 8Rituximab is associated with worse COVID-19 outcomes in patients with rheumatoid arthritis: A retrospective, nationally sampled cohort study from the U.S. National COVID Cohort Collaborative (N3C)
December 8A Community Challenge to Predict Clinical Outcomes After Immune Checkpoint Blockade in Non-Small Cell Lung Cancer
November 21External Model for Automated Mammography Interpretation by Artificial Intelligence
October 20The Post-Roe Political Landscape Demands a Morality of Caution for Women’s Health
October 19COVID-19 in people with neurofibromatosis 1, neurofibromatosis 2, or schwannomatosis
October 7A multi-omic analysis of MCF10A cells provides a resource for integrative assessment of ligand-mediated molecular and phenotypic responses
October 6GENETIC SUBGROUPS INFORM ON PATHOBIOLOGY IN ADULT AND PEDIATRIC BURKITT LYMPHOMA
August 4Disentangling personalized treatment effects from “time-of-the-day” confounding in mobile health studies
August 1A Crowdsourcing Approach to Develop Machine Learning Models to Quantify Radiographic Joint Damage in Rheumatoid Arthritis
July 12Preprint: AACR Project GENIE: 100,000 cases and beyond
July 1The Mobile Toolbox for monitoring cognitive function
July 1Big Health Data Research and Group Harm: The Scope of IRB Review
June 28Preprint: The NLP Sandbox: an efficient model-to-data system to enable federated and unbiased evaluation of clinical NLP models
June 23Centralizing neurofibromatosis experimental tool knowledge with the NF Research Tools Database
May 12Preprint: MindKind: A mixed-methods protocol for the feasibility of global digital mental health studies in young people
April 21Integrating human brain proteomes with genome-wide association data implicates novel proteins in post-traumatic stress disorder
April 12Manifestations of genetic risk for Alzheimer’s Disease in the blood: a cross-sectional multi-omic analysis in healthy adults aged 18-90+
March 24Chromatin domain alterations linked to 3D genome organization in a large cohort of schizophrenia and bipolar disorder brains
March 19MITI minimum information guidelines for highly multiplexed tissue images
March 14Risk and Outcome of Breakthrough COVID-19 Infections in Vaccinated Patients With Cancer: Real-World Evidence From the National COVID Cohort Collaborative
March 3U.S. Adult Perspectives on Facial Images, DNA, and Other Biometrics
March 1From paper to screen: regulatory and operational considerations for modernizing the informed consent process
February 22A Scalable Quality Assurance Process for Curating Oncology Electronic Health Records: The Project GENIE Biopharma Collaborative Approach
February 1Implications of Selection Bias Due to Delayed Study Entry in Clinical Genomic Studies
January 18A community challenge for a pancancer drug mechanism of action inference from perturbational profile data
January 10A Smartphone Application as an Exploratory Endpoint in a Phase 3 Parkinson’s Disease Clinical Trial: A Pilot Study
December 31Microglia subtype transcriptomes differ between Alzheimer Disease and control human postmortem brain samples
December 1Characterizing Long COVID: Deep Phenotype of a Complex Condition
November 15Engaged genomic science produces better and fairer outcomes: an engagement framework for engaging and involving participants, patients and publics in genomics research and healthcare implementation
November 11Ten simple rules on writing clean and reliable open-source scientific software
November 10GA4GH: International policies and standards for data sharing across genomic research and healthcare
November 5Pursuing Better Biomarkers for Immunotherapy Response in Cancer Through a Crowdsourced Data Challenge
October 17Cell-to-cell and type-to-type heterogeneity of signaling networks: insights from the crowd
October 1A Continuously Benchmarked and Crowdsourced Challenge for Rapid Development and Evaluation of Models to Predict COVID-19 Diagnosis and Hospitalization
September 14Crowdsourced identification of multi-target kinase inhibitors for RET- and TAU- based disease: The Multi-Targeting Drug DREAM Challenge
August 9Remote smartphone monitoring of Parkinson’s disease and individual response to therapy
July 29Machine Learning in Rare Disease
July 26Results of the Genetic Counselor SARS-CoV-2 Impact Survey from the National Society of Genetic Counselors: Progress and penalty during the COVID-19 pandemic
July 23Comprehensive Evaluation of the 5XFAD Mouse Model for Preclinical Testing Applications: A MODEL-AD Study.
July 23Bayesian multi-source regression and monocyte-associated gene expression predict BCL-2 inhibitor resistance in acute myeloid leukemia
July 15Brigatinib causes tumor shrinkage in both NF2-deficient meningioma and schwannoma through inhibition of multiple tyrosine kinases but not ALK
July 1Clinical Characterization and Prediction of Clinical Severity of SARS-CoV-2 Infection Among US Adults Using Data From the US National COVID Cohort Collaborative
July 1Correlation Between Surrogate End Points and Overall Survival in a Multi-institutional Clinicogenomic Cohort of Patients With Non-Small Cell Lung or Colorectal Cancer
June 28Genetic program activity delineates risk, relapse, and therapy responsiveness in multiple myeloma
June 16A community challenge to evaluate RNA-seq, fusion detection, and isoform quantification methods for cancer discovery
June 15Crowdsourcing assessment of maternal blood multi-omics for predicting gestational age and preterm birth
June 4Outcomes of COVID-19 in Patients With Cancer: Report From the National COVID Cohort Collaborative (N3C).
June 4Smartphone-Based VO2max Measurement With Heart Snapshot in Clinical and Real-world Settings With a Diverse Population: Validation Study
June 3Crowdsourced mapping of unexplored target space of kinase inhibitors.
May 4Multi-tissue neocortical transcriptome-wide association study implicates 8 genes across 6 genomic loci in Alzheimer’s disease.
April 22PBRM1 Deficiency Confers Synthetic Lethality to DNA Repair Inhibitors in Cancer
April 12Brain proteome-wide association study implicates novel proteins in depression pathogenesis
March 29Comprehensive identification of somatic nucleotide variants in human brain tissue.
March 25Sex differences in the human brain transcriptome of cases with schizophrenia
March 19Crowdsourcing digital health measures to predict Parkinson’s disease severity: the Parkinson’s Disease Digital Biomarker DREAM Challenge.
March 18Evaluation of artificial intelligence systems for assisting neurologists with fast and accurate annotations of scalp electroencephalography data.
March 1The National COVID Cohort Collaborative (N3C): Rationale, design, infrastructure, and deployment.
March 1Establishing the reliability of algorithms.
February 17Preprint: Crowdsourced identification of multi-target kinase inhibitors for RET- and TAU-based disease: the Multi-Targeting Drug DREAM Challenge
February 5Limb and trunk accelerometer data collected with wearable sensors from subjects with Parkinson’s disease
February 5Accelerometer data collected with a minimum set of wearable sensors from subjects with Parkinson’s disease
February 1Integrating human brain proteomes with genome-wide association data implicates new proteins in Alzheimer’s disease pathogenesis
February 1Design of a virtual longitudinal observational study in Parkinson’s disease (AT-HOME PD)
January 8Identifying drug targets for neurological and psychiatric disease via genetics and the brain transcriptome
December 27The AD Knowledge Portal: A Repository for Multi‐Omic Data on Alzheimer’s Disease and Aging
December 23Preprint: A Community Challenge for Pancancer Drug Mechanism of Action Inference from Perturbational Profile Data
December 15Society for Immunotherapy of Cancer clinical and biomarkers data sharing resource document: Volume II—practical challenges
December 4Assessment of the All of Us research program’s informed consent process
December 3Molecular estimation of neurodegeneration pseudotime in older brains
December 1COVID-19 in Patients With Inflammatory Arthritis: A Prospective Study on the Effects of Comorbidities and Disease-Modifying Antirheumatic Drugs on Clinical Outcomes
November 27Real-world longitudinal data collected from the SleepHealth mobile app study
November 23Model organism development and evaluation for late‐onset Alzheimer’s disease: MODEL‐AD
November 10A novel systems biology approach to evaluate mouse models of late-onset Alzheimer’s disease
November 9Stable predictions for health related anticausal prediction tasks affected by selection biases: the need to deconfound the test set features
October 27Evaluating the Utility of Smartphone-Based Sensor Assessments in Persons With Multiple Sclerosis in the Real-World Using an App (elevateMS): Observational, Prospective Pilot Digital Health Study.
October 12Large eQTL meta-analysis reveals differing patterns between cerebral cortical and cerebellar brain regions.
October 9Parameters of Tumor Epitope Immunogenicity Revealed Through a Consortium Approach Improve Neoantigen Prediction
August 14Vector genetics, insecticide resistance and gene drives: An agent-based modeling approach to evaluate malaria transmission and elimination
August 1Linked Entity Attribute Pair (LEAP): A Harmonization Framework for Data Pooling.
July 28Bringing Code to Data: Do Not Forget Governance
July 14Meta-Analysis of the Alzheimer’s Disease Human Brain Transcriptome and Functional Dissection in Mouse Models
July 8Developing pathways for community-led research with big data: a content analysis of stakeholder interviews
July 1Effects of mood and aging on keystroke dynamics metadata and their diurnal patterns in a large open-science sample: A BiAffect iOS study
June 19A Clinically and Genomically Annotated Nerve Sheath Tumor Biospecimen Repository
May 18Research Ethics in a Pandemic: considerations for the use of research infrastructure and resources for public health activities
April 28Who Are the People in Your Neighborhood? Personas Populating Unregulated mHealth Research
April 28Unregulated Health Research Using Mobile Devices: Ethical Considerations and Policy Recommendations
March 30Connected Medical Technology and Cybersecurity Informed Consent: A New Paradigm
March 30mhealthtools: A Modular R Package for Extracting Features from Mobile and Wearable Sensor Data
March 16Informed Consent in Two Alzheimer’s Disease Research Centers: Insights From Research Coordinators
March 13Modernizing and designing evaluation frameworks for connected sensor technologies in medicine
March 2Evaluation of Combined Artificial Intelligence and Radiologist Assessment to Interpret Screening Mammograms
February 21Integrative Analysis Identifies Candidate Tumor Microenvironment and Intracellular Signaling Pathways that Define Tumor Heterogeneity in NF1
February 20Crowdsourcing digital health measures to predict Parkinson’s disease severity: the Parkinson’s Disease Digital Biomarker DREAM Challenge
February 17Indicators of retention in remote digital health studies: a cross-study evaluation of 100,000 participants
February 9Data Science Approaches for Effective Use of Mobile Device–Based Collection of Real‐World Data
February 3Multiple Myeloma DREAM Challenge reveals epigenetic regulator PHF19 as marker of aggressive disease
February 2Bringing Code to Data: Don’t Forget Governance
February 1IRB Management and Function, 3rd edition: mHealth, Mobile Devices, and Apps (book chapter)
January 17Open Data Sharing in the 21st Century: Sage Bionetworks’ Qualified Research Program and Its Application in mHealth Data Release
January 8Crowdsourced mapping of unexplored target space of kinase inhibitors
January 6Navigating ethical quandaries with the privacy dilemma of biomedical datasets.
December 19Detecting the impact of subject characteristics on machine learning-based diagnostic applications
December 13Engaging a community to enable disease-centric data sharing with the NF Data Portal
December 4An open toolkit for tracking open science partnership implementation and impact
November 21Welcome to the Tidyverse
November 20Contemporary Views of Research Participant Willingness to Participate and Share Digital Data in Biomedical Research
November 19Causality-based tests to detect the influence of confounders on mobile health diagnostic applications: a comparison with restricted permutations
October 19Assessing Tele-Health Outcomes in Multiyear Extensions of Parkinson’s Disease Trials (AT-HOME PD): An Update on Recruitment: 1067
October 2Indicators of retention in remote digital health studies: A cross-study evaluation of 100,000 participants
September 20Reproducible biomedical benchmarking in the cloud: lessons from crowd-sourced data challenges
September 6CommonMind Consortium provides transcriptomic and epigenomic data for Schizophrenia and Bipolar Disorder.
August 15The “All of Us” Research Program
August 6The Rise of Citizen Science in Health and Biomedical Research
July 19Mobiletoolbox for mobile monitoring of cognitive change
July 17Community-powered, radically open technologies to acceslerate Alzheimer’s Disease therapeutic discovery
July 15Identifying and ranking potential driver genes of Alzheimer’s disease using multiview evidence aggregation.
July 6A qualitative analysis of coordinator perceptions of the consent process: Lessons guiding the development of an electronic consent platform
July 1Developing an electronic consent for ADRC
July 1Agora: A platform for the democratization of Alzheimer’s Disease target evidence
June 19THE JOURNEY PRO STUDY: FEASIBILITY AND USER ACCEPTANCE OF A SMARTPHONE APP TO ASSESS THE BURDEN OF ANEMIA IN PATIENTS WITH MYELODYSPLASTIC SYNDROMES (MDS), β-THALASSEMIA (BT), AND MYELOFIBROSIS (MF)
May 20The evolution and multi-molecular properties of NF1 cutaneous neurofibromas originating from C-fiber sensory endings and terminal Schwann cells at normal sites of sensory terminations in the skin
May 2Supporting Coping with Parkinson’s Disease Through Self Tracking
April 19Assessing Tele-Health Outcomes in Multiyear Extensions of Parkinson’s Disease Trials (AT-HOME PD): Initiation of a Long-Term Observational Study (P2. 8-011)
April 11Physical activity, sleep and cardiovascular health data for 50,000 individuals from the MyHeart Counts Study
March 1Importance of Participant-Centricity and Trust for a Sustainable Medical Information Commons
January 29Identifying and ranking potential driver genes of Alzheimer’s Disease using multi-view evidence aggregation
January 21Implementing a universal informed consent process for the All of Us Research Program
January 19Stratification of amyotrophic lateral sclerosis patients: a crowdsourcing approach.
January 19Identifying and ranking potential driver genes of Alzheimer’s Disease using multi-view evidence aggregation
January 19Large eQTL meta-analysis reveals differing patterns between cerebral cortical and cerebellar brain regions
January 10Open science precision medicine in Canada: Points to consider
January 6Ethical Issues in Consumer Informatics and Online Content
January 3Meta-analysis of the human brain transcriptome identifies heterogeneity across human AD coexpression modules robust to sample collection and methodological approach
January 2Towards a consensus around standards for smartphone apps and digital mental health
December 24A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection
December 7The Role of Government in Precision Medicine, Precision Public Health and the Intersection With Healthy Living
October 22Spatiotemporal loss of NF1 in Schwann cell lineage leads to different types of cutaneous neurofibroma susceptible to modification by the Hippo pathway
October 8Remote Assessment, in Real-World Setting, of Tremor Severity in Parkinson’s Disease Patients Using Smartphone Inertial Sensors
September 11The Mount Sinai cohort of large-scale genomic, transcriptomic and proteomic data in Alzheimer’s disease
September 5The Healthy Pregnancy Research Program: transforming pregnancy research through a ResearchKit app
August 21The accuracy of passive phone sensors in predicting daily mood
August 20Probing the chemical–biological relationship space with the Drug Target Explorer
August 9Using Mobile Apps to Assess and Treat Depression in Hispanic and Latino Populations: Fully Remote Randomized Clinical Trial.
August 7A multi-omic atlas of the human frontal cortex for aging and Alzheimer’s disease research
August 1The Emerging Imperative for a Consensus Approach Toward the Rating and Clinical Recommendation of Mental Health Apps
July 23Responsible sharing of biomedical data and biospecimens via the “Automatable Discovery and Access Matrix” (ADA-M)
June 13Traditional and systems biology based drug discovery for the rare tumor syndrome neurofibromatosis type 2
June 12Pharmacological and genomic profiling of neurofibromatosis type 1 plexiform neurofibroma-derived schwann cells
June 8Unsupervised Analysis of Transcriptomics in Bacterial Sepsis Across Multiple Datasets Reveals Three Robust Clusters
June 7Landscape of Conditional eQTL in Dorsolateral Prefrontal Cortex and Co-localization with Schizophrenia GWAS
May 22The asthma mobile health study, smartphone data collected using ResearchKit
April 26Cutaneous neurofibromas in the genomics era: current understanding and open questions
April 18Smartphone-Based Passive Assessment of Mobility in Depression: Challenges and Opportunities
April 5Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation
April 5An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics
April 1Introduction to the “Technology in Practice” Special Issue.
April 1Review and Comparison of Electronic Patient-Facing Family Health History Tools
March 27Design Issues in E-Consent
March 7Engaging populations underrepresented in research through novel approaches to consent
February 1A community approach to mortality prediction in sepsis via gene expression analysis
January 1Democratizing Health Data for Translational Research
December 21The inconvenience of data of convenience: computational research beyond post-mortem analyses
October 23KRAS Mutation and Consensus Molecular Subtypes 2 and 3 Are Independently Associated with Reduced Immune Infiltration and Reactivity in Colorectal Cancer
October 17Targeted metabolomics and medication classification data from participants in the ADNI1 cohort
October 16The efficacy of smartphone-based mental health interventions for depressive symptoms: a meta-analysis of randomized controlled trials
October 10An xQTL map integrates the genetic architecture of the human brain’s transcriptome and epigenome
September 28Up For A Challenge (U4C): Stimulating innovation in breast cancer genetic epidemiology
August 30Consent Processes for Mobile App Mediated Research: Systematic Review
August 30Consent Processes for Mobile App Mediated Research: Systematic Review
August 29Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells
August 3Cancer: A precision approach to tumour treatment
June 1Large-Scale Identification of Common Trait and Disease Variants Affecting Gene Expression
June 1AACR Project GENIE: Powering Precision Medicine Through An International Consortium.
May 1Prediction of overall survival in stage II and III colon cancer beyond TNM system: a retrospective, pooled biomarker study
April 11A high-throughput molecular data resource for Cutaneous Neurofibromas
March 28Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives
February 16Formative Evaluation of Participant Experience With Mobile eConsent in the App-Mediated Parkinson mPower Study: A Mixed Methods Study
February 16Formative Evaluation of Participant Experience With Mobile eConsent in the App-Mediated Parkinson mPower Study: A Mixed Methods Study
February 14The Mole Mapper Study, mobile phone skin imaging and melanoma risk data collected using ResearchKit
February 14The Mole Mapper Study, mobile phone skin imaging and melanoma risk data collected using ResearchKit
January 4Consensus molecular subtypes and the evolution of precision medicine in colorectal cancer
December 19Differential gene expression profiling of matched primary renal cell carcinoma and metastases reveals upregulation of extracellular matrix genes
December 1Systems Approaches to Cancer Biology
November 15Prediction of overall survival for patients with metastatic castration-resistant prostate cancer: development of a prognostic model through a crowdsourced challenge with open clinical trial data
October 11Human whole genome genotype and transcriptome data for Alzheimer’s and other neurodegenerative diseases.
September 26Gene expression elucidates functional impact of polygenic risk for schizophrenia
August 23Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis
July 15Crowdsourcing biomedical research: leveraging communities as innovation engines
July 11Spatiotemporal reconstruction of the human blastocyst by single-cell gene expression analysis informs induction of naive pluripotency
July 6Mobile health: the power of wearables, sensors, and apps to transform clinical trials
June 10Crowdsourced estimation of cognitive decline and resilience in Alzheimer’s disease
June 9Integrated Genomic Analysis of Diverse Induced Pluripotent Stem Cell from the Progenitor Cell Biology Consortium
June 3Understanding the contribution of family history to colorectal cancer risk and its clinical implications: A state-of-the-science review
May 5Developing a Transparent, Participant-Navigated Electronic Informed Consent for Mobile-Mediated Research
April 11Analysis of 589,306 genomes identifies individuals resilient to severe Mendelian childhood diseases
April 8DREAMTools: a Python package for scoring collaborative challenges
March 15A large dataset of protein dynamics in the mammalian heart proteome
March 3First, design for data sharing.
March 3The mPower study, Parkinson disease mobile data collected using ResearchKit.
March 3Smartphones as new tools in the management and understanding of Parkinson’s disease.
March 1Practical Guidelines for High-resolution Epigenomic Profiling of Postmortem Human Brain Tissue
February 22Empirical assessment of causal network inference through a community-based effort.
November 25The PsychENCODE project
October 12The consensus molecular subtypes of colorectal cancer.
September 7rCGH : a comprehensive array-based genomic profile platform for precision medicine
August 26TRIM32 modulates pluripotency entry and exit by directly regulating Oct4 stability
July 13The NIH BD2K center for big data in translational genomics
July 12App-enabled trial participation: Tectonic shift or tepid rumble?
June 5Safety and Activity of the First-in-Class Sym004 Anti-EGFR Antibody Mixture in Patients with Refractory Colorectal Cancer.
May 18Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection.
May 12Heterogeneity of driver genes and therapeutic implications in colorectal cancer.
April 27Personalizing Colon Cancer Adjuvant Therapy: Selecting Optimal Treatments for Individual Patients.
March 16The Prostate Cancer DREAM Challenge: A Community-Wide Effort to Use Open Clinical Trial Data for the Quantitative Prediction of Outcomes in Metastatic Prostate Cancer.
February 18Sparse expression bases in cancer reveal tumor drivers.
February 7Assessing the scale of tumor heterogeneity by complete hierarchical segmentation of MRI.
February 5Database of genomic biomarkers for cancer drugs and clinical targetability in solid tumors.
January 28Bayesian Network Reconstruction using Systems Genetics Data: Comparison of MCMC Methods.
January 15Diversity matters: Historical lessons.
December 23Impact of centralization on aCGH-based genomic profiles for precision medicine in oncology.
December 14Response to “Tumor cells in search for glutamate: an alternative explanation for increased invasiveness of IDH1 mutant gliomas”.
November 11Social interactomes for enabling research communities.
October 28Patient-specific metrics of invasiveness reveal significant prognostic benefit of resection in a predictable subset of gliomas.
October 8Molecular Markers Identify Subtypes of Stage III Colon Cancer Associated with Patient Outcomes.
October 7Simulation studies as designed experiments: the comparison of penalizede regression models in the “large p, small n” setting.
October 1Large-scale evaluation of ANTs and FreeSurfer cortical thickness measurements.
September 10Game design for bioinformatics and cyberinfrastructure learning: a parallel computing case study.
September 10Piecing the puzzle together: a revisit to transcript reconstruction problem in RNA-Seq.
September 5Phase I/IIa study evaluating the safety, efficacy, pharmacokinetics, and pharmacodynamics of lucitanib in advanced solid tumors.
September 1Drug susceptibility prediction against a panel of drugs using kernelized Bayesian multitask learning.
August 19Periostin is a novel therapeutic target that predicts and regulates glioma malignancy.
August 15Functional kinomics identifies candidate therapeutic targets in head and neck cancer.
August 14Multiplatform Analysis of 12 Cancer Types Reveals Molecular Classification within and across Tissues of Origin.
July 30Common dysregulation network in the human prefrontal cortex underlies two neurodegenerative diseases.
July 16Mapping sleeping bees within their nest: spatial and temporal analysis of worker honey bee sleep.
July 15Optimal design of trials to demonstrate the utility of genomically-guided therapy: putting Precision Cancer Medicine to the test.
June 22Assessing the clinical utility of cancer genomic and proteomic data across tumor types.
June 16Invasion and proliferation kinetics in enhancing gliomas predict IDH1 mutation status.
May 30Clues from the resilient.
May 27Describing high-order statistical dependence using “Concurrence Topology,” with application to functional MRI brain data.
May 6Citizens as partners in the use of clinical data.
May 1TGR analysis in phase I clinical trials–letter.
May 1CTCF haploinsufficiency destabilizes DNA methylation and predisposes to cancer.
April 4Standardized decision support in next generation sequencing reports of somatic cancer variants.
March 30Synapse elimination and learning rules co-regulated by MHC class I H2-Db.
March 27Global optimization of somatic variant identification in cancer genomes with a global community challenge.
March 1Coupled dimensionality reduction and classification for supervised and semi-supervised multi label learning.
March 1Synthetic lethal screens as a means to understand and treat MYC-driven cancers.
January 31ANKS1B is a smoking-related molecular alteration in clear cell renal cell carcinoma.
January 23Discriminating survival outcomes in patients with glioblastoma using a simulation-based, patient-specific response metric
January 19Systematic assessment of analytical methods for drug sensitivity prediction from cancer cell line data.
January 18The Stream Algorithm: computationally efficient ridge-regression via Bayesian model averaging, and applications to pharmacogenomic prediction of cancer cell line sensitivity
January 18Stepwise Group Sparse Regression (SGSR): Gene-Set-Based Pharmacogenomic Predictive Models with Stepwise Selection of Functional Priors.
January 17Bayesian Multiview Dimensionality Reduction for Learning Predictive Subspaces.
January 17Embedding Heterogeneous Data by Preserving Multiple Kernels.
January 17The Stream Algorithm: computationally efficient ridge-regression via Bayesian model averaging, and applications to pharmacogenomic prediction of cancer cell line sensitivity.
January 14The evolution of our molecular understanding of colorectal cancer: what we are doing now, what the future holds, and how tumor profiling is just the beginning.
January 1Systematic assessment of analytical methods for drug sensitivity prediction from cancer cell line data.
December 18Somatic Expression of ENRAGE is Associated with Obesity Status among Patients with Clear Cell Renal Cell Carcinoma
December 13Network-based differential gene expression analysis suggests cell cycle related genes regulated by E2F1 underlie the molecular difference between smoker and non-smoker lung adenocarcinoma
December 12Modeling RAS Phenotype in Colorectal Cancer Uncovers Novel Molecular Traits of RAS Dependency and Improves Prediction of Response to Targeted Agents in Patients.
November 15Cancer, Potential of the synthetic lethality principle
November 15MyoD is a tumor suppressor gene in medulloblastoma
November 13Tumor Growth Rate is an early indicator of anti-tumor drug activity in phase I trials
September 26The Cancer Genome Atlas Pan-Cancer analysis project
September 26Enabling Transparent and Collaborative Computational Analysis of 12 tumor types within The Cancer Genome Atlas
September 2HNRNPA1 regulates HMGCR alternative splicing and modulates cellular cholesterol metabolism
August 28A statin-dependent QTL for GATM expression is associated with statin-induced myopathy
August 26Comparison of Outcomes After Fluorouracil-Based Adjuvant Therapy for Stage II and III Colon Cancer Between 1978-1995 and 1996-2007: Findings from the ACCENT Database
August 15Impact of bioinformatic procedures in the development and translation of high-throughput molecular classifiers in clinical oncology
August 10Parallel globally optimal structure learning of Bayesian networks
August 10Tumor Growth Rate Provides Useful Information to Evaluate Sorafenib and Everolimus Treatment in Metastatic Renal Cell Carcinoma Patients: An Integrated Analysis of the TARGET and RECORD Phase 3 Trial Data.
August 9Integrative Modeling of eQTLs and Cis-Regulatory Elements Suggests Mechanisms Underlying Cell Type Specificity of eQTLs
July 18A phase II flexible screening design allowing for interim analysis and comparison with historical control
June 25hARACNe: improving the accuracy of regulatory model reverse engineering via higher order data processing inequality tests
May 9Genome-wide Characterization of Transcriptional Patterns in High and Low Antibody Responders to Rubella Vaccination
May 9Improving Breast Cancer Survival Analysis Through Competition-Based Multidimensional Modeling
May 2IGF-1R targeting increases the antitumor effects of DNA damaging agents in SCLC model: an opportunity to increase the efficacy of standard therapy
May 1Systematic Analysis of Challenge-Driven Improvements in Molecular Prognostic Models for Breast Cancer
April 26Crowdsourcing genetic prediction of clinical utility in the Rheumatoid Arthritis Responder Challenge
April 25Integrated Systems Approach Identifies Genetic Nodes and Networks in Late-Onset Alzheimer’s Disease
April 15A network-heuristic approach to improve the impact of genomic data on drug discovery
April 9Variants in triggering receptor expressed on myeloid cells 2 are associated with both behavioral variant frontotemporal lobar degeneration and Alzheimer’s disease.
April 5Metcalfe’s law and the biology information commons
March 28A Fool’s Errand
March 28A system biology framework identifies molecular underpinings of coronary heart disease
March 18Modeling causality for pairs of phenotypes in systems genetics
March 18clearScience: Infrastructure for communicating Data-intensive science
March 15US-EU Scientific Research Collaborations: Sage Bionetworks’ Experience Navigating the Complex Regulatory Landscape.
February 11Response classification based on a minimal model of glioblastoma growth is prognostic for clinical outcomes and distinguishes progression from pseudoprogression
January 16GSVA: Gene Set Variation Analysis