| Comparative Analysis of Distinct Genomic Landscapes in Young-Onset gBRCA1/2 Breast Cancer | JCI Insight | 4/28/2026 | GDC |
| Pan-cancer Analysis and Experimental Validation Identify CYP19A1 as a Prognostic Biomarker and Oncogenic Driver Associated with Tumor Immune Microenvironment Regulation in Gastrointestinal Cancers | Discover Oncology | 4/27/2026 | GDC |
| Enhancer and Metabolic Rewiring by KMT2C-COMPASS or KMT2D-COMPASS Family Loss in Cancer Creates Druggable Vulnerabilities | Nature Reviews Cancer | 4/24/2026 | GDC |
| Analysis of Ovarian Cancer Immune Cell Profiles Associated with Clinical Outcomes | PLOS One | 4/20/2026 | GDC |
| Coherent Cross-Modal Generation of Synthetic Biomedical Data to Advance Multimodal Precision Medicine | PLOS Computational Biology | 4/16/2026 | GDC |
| Systematic Pan-Cancer Characterization of ST3GAL4 Reveals Its Prognostic and Immunologic Associations | Biomedicines | 3/27/2026 | GDC |
| Investigation of Angiogenesis and Epithelial-Mesenchymal Transition Markers in Prostatic Cancer Patients | World Journal of Surgical Oncology | 3/25/2026 | GDC |
| Proteogenomic Analysis of Gastrointestinal Disease | Gut | 1/29/2026 | PDC |
| MOKCa-3D Database: Functional and Structural Analysis of Missense Mutations in Cancer | Database | 1/15/2026 | GDC |
| Integrative Analysis Of Lung Adenocarcinoma Across Diverse Ethnicities And Exposures | Cancer Cell | 9/8/2025 | PDC |
| Proteomic-Based Stemness Score Measures Oncogenic Dedifferentiation And Enables The Identification Of Druggable Targets | Cell Genomics | 6/11/2025 | PDC |
| Three-Dimensional Genome Landscape of Primary Human Cancers | Nature Genetics | 5/12/2025 | GDC |
| DNA Methylation Epitypes of Burkitt Lymphoma with Distinct Molecular and Clinical Features | Blood Cancer Discovery | 5/8/2025 | GDC |
| Precision Proteogenomics Reveals Pan-Cancer Impact Of Germline Variants | Cell | 5/1/2025 | PDC |
| Integrated Multi-omics Analyses of Oral Squamous Cell Carcinoma Reveal Precision Patient Stratification and Personalized Treatment Strategies | Cancer Letters | 4/1/2025 | PDC |
| Deciphering The Dark Cancer Phosphoproteome Using Machine-Learned Co-Regulation Of Phosphosites | Nature Communications | 3/20/2025 | PDC |
| Proteogenomic Characterization of Molecular and Cellular Targets for Treatment-Resistant Subtypes in Locally Advanced Cervical Cancers | Molecular Cancer | 3/14/2025 | PDC |
| Classification of non-TCGA Cancer Samples to TCGA Molecular Subtypes Using Compact Feature Sets | Cancer Cell | 2/10/2025 | GDC |
| Unlocking the Potential of Digital Pathology: Novel Baselines for Compression | Journal of Pathology Informatics | 12/28/2024 | IDC |
| Mapping The Functional Network Of Human Cancer Through Machine Learning And Pan-Cancer Proteogenomics | Nat Cancer | 12/11/2024 | PDC |
| Genomic Determinants of Outcome in Acute Lymphoblastic Leukemia | Journal of Clinical Oncology | 10/10/2024 | GDC |
| Proteogenomic Insights Suggest Druggable Pathways in Endometrial Carcinoma | Cancer Cell | 9/11/2024 | PDC |
| Single-Cell Chromatin Accessibility Reveals Malignant Regulatory Programs in Primary Human Cancers | Science | 9/6/2024 | GDC |
| Multiomics2Targets Identifies Targets From Cancer Cohorts Profiled With Transcriptomics, Proteomics, And Phosphoproteomics | Cell Reports Methods | 8/19/2024 | PDC |
| Pan-Cancer Proteogenomics Expands The Landscape Of Therapeutic Targets | Cell | 8/8/2024 | PDC |
| Illuminating Key Signaling Pathways and Tumor Evolution in High-Grade Glioma | Cancer Cell | 7/16/2024 | PDC |
| Multi-Scale Signaling And Tumor Evolution In High-Grade Gliomas | Cancer Cell | 7/8/2024 | PDC |
| Multi-Omic Profiling Of Intraductal Papillary Neoplasms Of The Pancreas Reveals Distinct Expression Patterns And Potential Markers Of Progression | bioRxiv | 7/7/2024 | PDC |
| Comprehensive Proteogenomic Characterization of Rare Kidney Tumors | Cell Reports Medicine | 5/21/2024 | PDC |
| NCI Cancer Research Data Commons: Lessons Learned and Future State | Cancer Research | 5/02/2024 | CRDC |
| NCI Cancer Research Data Commons: Resources to Share Key Cancer Data | Cancer Research | 5/02/2024 | CRDC |
| NCI Cancer Research Data Commons: Cloud-Based Analytic Resources | Cancer Research | 5/02/2024 | FC, ISB-CGC, SB-CGC |
| NCI Cancer Research Data Commons: Core Standards and Services | Cancer Research | 5/02/2024 | CRDC |
| Proteogenomic Analysis of Enriched HGSOC Tumor Epithelium Identifies Prognostic Signatures and Therapeutic Vulnerabilities | NPJ Precision Oncology | 3/13/2024 | GDC |
| Integrated Proteogenomic Characterization of Glioblastoma Evolution | Cancer Cell | 3/11/2024 | PDC |
| Pan-Cancer Proteogenomics Characterization Of Tumor Immunity | Cell | 2/29/2024 | PDC |
| Frozen Tissue Coring and Layered Histological Analysis Improves Cell Type-Specific Proteogenomic Characterization of Pancreatic Adenocarcinoma | Clinical Proteomics | 1/30/2024 | PDC |
| Enrichment of Lung Cancer Computed Tomography Collections with AI-Derived Annotations | Nature Scientific Data | 1/24/2024 | IDC |
| Mapping the Proteogenomic Landscape Enables Prediction of Drug Response in Acute Myeloid Leukemia | Cell Reports Medicine | 1/16/2024 | PDC |
| Detection of Pancreatic Ductal Adenocarcinoma-Associated Proteins in Serum | Molecular and Cellular Proteomics | 1/2024 | PDC |
| Leading the Pack: Best Practices in Comparative Canine Cancer Genomics to Inform Human Oncology | Veterinary and Comparative Oncology | 12/2023 | ICDC |
| The NCI Imaging Data Commons as a Platform for Reproducible Research in Computational Pathology | Computer Methods and Programs in Biomedicine | 12/2023 | IDC |
| National Cancer Institute Imaging Data Commons: Toward Transparency, Reproducibility, and Scalability in Imaging Artificial Intelligence | RadioGraphics | 11/24/2023 | IDC |
| Idppub: Illuminating The Dark Phosphoproteome Through Pubmed Mining | Molecular & Cellular Proteomics | 11/21/2023 | PDC |
| A Proteogenomics Data-Driven Knowledge Base of Human Cancer | Cell Systems | 9/20/2023 | PDC |
| Integrative Multi-Omic Cancer Profiling Reveals DNA Methylation Patterns Associated with Therapeutic Vulnerability and Cell-of-Origin | Cancer Cell | 9/11/2023 | PDC |
| Pan-Cancer Proteogenomics Connects Oncogenic Drivers to Functional States | Cell | 8/14/2023 | PDC |
| Deep Learning Integrates Histopathology and Proteogenomics at a Pan-Cancer Level | Cell Reports Medicine | 8/14/2023 | PDC |
| Pan-Cancer Analysis of Post-Translational Modifications Reveals Shared Patterns of Protein Regulation | Cell | 8/14/2023 | PDC |
| Proteogenomic Data and Resources for Pan-Cancer Analysis | Cancer Cell | 8/14/2023 | PDC |
| Proteogenomic Analysis Of Chemo-Refractory High-Grade Serous Ovarian Cancer | Cell | 8/3/2023 | PDC |
| Transparent and Reproducible AI-based Medical Imaging Pipelines Using the Cloud | Research Square | 7/21/2023 | IDC |
| Enrichment of the NLST and NSCLC-Radiomics Computed Tomography Collections with AI-Derived Annotations | ArXiv | 5/21/2023 | IDC |
| Integrated Glycoproteomic Characterization of Clear Cell Renal Cell Carcinoma | Cell Reports Medicine | 4/18/2023 | PDC |
| Interoperable Slide Microscopy Viewer and Annotation Tool for Imaging Data Science and Computational Pathology | Nature Communications | 3/22/2023 | IDC |
| Refining Classification Of Cholangiocarcinoma Subtypes Via Proteogenomic Integration Reveals New Therapeutic Prospects | Gastroenterology | 3/9/2023 | PDC |
| Proteogenomic Landscape of Human Pancreatic Ductal Adenocarcinoma in an Asian Population Reveals Tumor Cell-Enriched and Immune-Rich Subtypes | Nature Cancer | 12/22/2022 | PDC |
| Histopathologic and Proteogenomic Heterogeneity Reveals Features of Clear Cell Renal Cell Carcinoma Aggressiveness | Cancer Cell | 12/22/2022 | PDC |
| Proteogenomic Analysis of Lung Adenocarcinoma Reveals Tumor Heterogeneity, Survival Determinants, and Therapeutically Relevant Pathways | Cell Reports Medicine | 11/15/2022 | PDC, GDC |
| Proteogenomic Analysis Of Lung Adenocarcinoma Reveals Tumor Heterogeneity, Survival Determinants And Therapeutically-Relevant Pathways | Cell Reports Med | 11/15/2022 | GDC, PDC |
| Proteogenomic Markers of Chemotherapy Resistance and Response in Triple Negative Breast Cancer | Cancer Discovery | 11/2/2022 | PDC |
| Neoplastic Cell Enrichment of Tumor Tissues Using Coring and Laser Microdissection for Proteomic and Genomic Analyses of Pancreatic Ductal Adenocarcinoma | Clinical Proteomics | 10/20/2022 | PDC |
| Genetic Subgroups Inform on Pathobiology in Adult and Pediatric Burkitt Lymphoma | Blood | 10/6/2022 | GDC |
| Integrated Stem Cell Signature And Cytomolecular Risk Determination In Pediatric Acute Myeloid Leukemia | Nature Communications | 9/19/2022 | GDC |
| The Genomic Landscape of Pediatric Acute Lymphoblastic Leukemia | Nature Genetics | 9/01/2022 | GDC |
| Highdicom: a Python Library for Standardized Encoding of Image Annotations and Machine Learning Model Outputs in Pathology and Radiology | Journal of Digital Imaging | 8/22/2022 | IDC |
| Integrative Analysis of Drug Response and Clinical Outcome in Acute Myeloid Leukemia | Cancer Cell | 8/8/2022 | GDC |
| Proteomic and Phosphoproteomic Measurements Enhance Ability to Predict Ex Vivo Drug Response in AML | Clinical Proteomics | 7/27/2022 | PDC |
| Genetic Changes Associated with Relapse in Favorable Histology Wilms tumor: A Children's Oncology Group AREN03B2 Study | Cell Reports Medicine | 6/21/2022 | GDC |
| Genetic Changes Associated With Relapse In Favorable Histology Wilms Tumor - A Children’S Oncology Group Aren03B2 Study | Cell Reports Medicine | 6/21/2022 | GDC |
| Combinatorial and Machine Learning Approaches for Improved Somatic Variant Calling from Formalin-Fixed Paraffin-Embedded Genome Sequence Data | Frontiers in Genetics | 4/27/2022 | GDC |
| The AIMI Initiative: AI-Generated Annotations for Imaging Data Commons Collections | ArXiv | 11/21/2021 | IDC |
| Transcriptomic Profiling in Canines and Humans Reveals Cancer Specific Gene Modules and Biological Mechanisms Common to Both Species | PLOS Computational Biology | 9/27/2021 | ICDC |
| Proteogenomic Characterization of Pancreatic Ductal Adenocarcinoma | Cell | 9/16/2021 | PDC |
| NCI Imaging Data Commons | Cancer Research | 8/15/2021 | IDC |
| A Proteogenomic Portrait of Lung Squamous Cell Carcinoma | Cell | 8/5/2021 | PDC |
| Canine Tumor Mutational Burden is Correlated with TP53 Mutation Across Tumor Types and Breeds | Nature Communications | 8/3/2021 | ICDC |
| The AML Microenvironment Catalyzes a Step-Wise Evolution to Gilteritinib Resistance | Cancer Cell | 6/24/2021 | PDC |
| Adjuvant Sirolimus Does Not Improve Outcome in Pet Dogs Receiving Standard-of-Care Therapy for Appendicular Osteosarcoma: A Prospective, Randomized Trial of 324 Dogs | AACR | 6/1/2021 | ICDC |
| Lack Of Transgenerational Effects Of Ionizing Radiation Exposure In Cleanup Workers And Evacuees Of The Chernobyl Accident | Science | 5/14/2021 | GDC |
| Radiation-Related Genomic Profile Of Papillary Thyroid Cancer After The Chernobyl Accident | Science | 5/14/2021 | GDC |
| Reliable Analysis of Clinical Tumor-Only Whole-Exome Sequencing Data | JCO Clin Cancer Inform | 4/13/2021 | Broad - FireCloud |
| Proteogenomic and Metabolomic Characterization of Human Glioblastoma | Cancer Cell | 4/12/2021 | PDC |
| Proteogenomic Insights into the Biology and Treatment of HPV-Negative Head and Neck Squamous Cell Carcinoma | Cancer Cell | 3/8/2021 | PDC |
| RNA Splicing and Aggregate Gene Expression Differences in Lung Squamous Cell Carcinoma Between Patients of West African and European Ancestry | Lung Cancer | 3/1/2021 | GDC |
| Whole-Genome Characterization Of Lung Adenocarcinomas Lacking Alterations In The Rtk/Ras/Raf Pathway | Cell Reports | 2/23/2021 | GDC |
| Bringing Structural Implications and Deep Learning-Based Drug Identification for KRAS Mutants | J Chem Inf Model | 2/22/2021 | GDC |
| The NCI Genomic Data Commons | Nature Genetics | 2/22/2021 | GDC |
| Uniform Genomic Data Analysis in the NCI Genomic Data Commons | Nature Communications | 2/22/2021 | GDC |
| TAp73β Can Promote Hepatocellular Carcinoma Dedifferentiation | Cancers (Basel) | 2/13/2021 | GDC |
| Genotyping Common, Large Structural Variations in 5,202 Genomes Using Pangenomes, the Giraffe Mapper, and the VG Toolkit | bioRxiv | 2/2/2021 | Broad - FireCloud |
| A cross-disorder dosage sensitivity map of the human genome | medRxiv | 1/28/2021 | Broad - FireCloud |
| Expression and Gene Regulatory Network of SNHG1 in Hepatocellular Carcinoma | BMC Med Genomics | 1/26/2021 | GDC |
| Assessing single-cell transcriptomic variability through density-preserving data visualization | Nature Biotechnology | 1/18/2021 | Broad - FireCloud |
| Tractor uses local ancestry to enable the inclusion of admixed individuals in GWAS and to boost power | Nature Genetics | 1/18/2021 | Broad - FireCloud |
| Streamlining data-intensive biology with workflow systems | GigaScience | 1/13/2021 | Broad - FireCloud |
| BinomiRare: A carriers-only test for association of rare genetic variants with a binary outcome for mixed models and any case-control proportion | MedRxiv | 1/9/2021 | Broad - FireCloud |
| Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer | Cell | 12/23/2020 | PDC |
| The first insight into the genetic structure of the population of modern Serbia | bioRxiv | 12/18/2020 | SB-CGC |
| Ace2 expression is higher in intestines and liver while being tightly regulated in development and disease in zebrafish | bioRxiv | 12/14/2020 | SB-CGC |
| Metabolism-Associated Molecular Classification of Colorectal Cancer | Front Oncol | 12/4/2020 | GDC |
| Genomic and epigenetic aberrations of chromosome 1p36.13 have prognostic implications in malignancies | Chromosome Res | 12/1/2020 | GDC |
| Transcriptional Landscape of Hepatocellular Carcinoma Reveals that Patient Ethnic-Origin Influences Patterns of Expression | bioRxiv | 12/1/2020 | SB-CGC |
| Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy | Cell | 11/25/2020 | PDC |
| Novel, abundant Drosha isoforms are deficient in miRNA processing in cancer cells | RNA Biology | 11/17/2020 | SB-CGC |
| Strengthening the BioCompute Standard by Crowdsourcing on PrecisionFDA | bioRxiv | 11/2/2020 | SB-CGC |
| Integrated Proteomic and Glycoproteomic Characterization of Human High-Grade Serous Ovarian Carcinoma | Cell Reports Medicine | 10/20/2020 | PDC |
| Genetic alterations of SUGP1 mimic mutant-SF3B1 splice pattern in lung adenocarcinoma and other cancers | Oncogene | 10/14/2020 | SB-CGC |
| Alzheimer Gene BIN1 may Simultaneously Influence Dementia Risk and Androgen Deprivation Therapy Dosage in Prostate Cancer | Am J Clin Oncol | 10/1/2020 | GDC |
| BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations | F1000Research | 9/16/2020 | SB-CGC |
| OpenGDC: Unifying, Modeling, Integrating Cancer Genomic Data and Clinical Metadata | Applied Sciences | 9/12/2020 | SB-CGC |
| Developing and Using a Data Commons for Understanding the Molecular Characteristics of Germ Cell Tumors | Methods Mol Biol | 8/28/2020 | GDC |
| Integrated Analysis of Germ Cell Tumors | Testicular Germ Cell Tumors | 8/28/2020 | Broad - FireCloud |
| The Veterans Affairs Precision Oncology Data Repository, a Clinical, Genomic, and Imaging Research Database | Patterns (N Y) | 8/17/2020 | GDC |
| Analysis Of Ugandan Cervical Carcinomas Identifies Human Papillomavirus Clade-Specific Epigenome And Transcriptome Landscapes | Nature Genetics | 8/3/2020 | GDC |
| Linked Entity Attribute Pair (LEAP): A Harmonization Framework for Data Pooling | JCO Clin Cancer Inform | 8/1/2020 | GDC |
| Scalability and cost-effectiveness analysis of whole genome-wide association studies on Google Cloud Platform and Amazon Web Services | J am Med Inform Assoc. | 7/27/2020 | SB-CGC |
| Proteogenomic characterization of human colon and rectal cancer | Nature | 7/20/2020 | PDC |
| Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma. | Cell | 7/9/2020 | PDC |
| Proteogenomics of Non-smoking Lung Cancer in East Asia Delineates Molecular Signatures of Pathogenesis and Progression. | Cell | 7/9/2020 | PDC |
| Proteogenomic Characterization Reveals Therapeutic Vulnerabilities In Lung Adenocarcinoma | Cell | 7/9/2020 | PDC |
| Proteogenomics Of Non-Smoking Lung Cancer In East Asia Delineates Molecular Signatures Of Pathogenesis And Progression | Cell | 7/9/2020 | PDC |
| Oncogenic Features in Histologically Normal Mucosa: Novel Insights Into Field Effect From a Mega-Analysis of Colorectal Transcriptomes | Clin Transl Gastroenterol | 7/1/2020 | GDC |
| LINE-1 expression in cancer correlates with DNA damage response, copy number variation, and cell cycle progression | bioRxiv | 6/28/2020 | SB-CGC |
| Type 3 innate lymphoid cells are associated with a successful intestinal transplant | Am J Transplant | 6/28/2020 | SB-CGC |
| Identification of the key genes and characterizations of Tumor Immune Microenvironment in Lung Adenocarcinoma (LUAD) and Lung Squamous Cell Carcinoma (LUSC) | J Cancer | 6/16/2020 | GDC |
| Identification of an Immune Score-Based Gene Panel with Prognostic Power for Oral Squamous Cell Carcinoma | Med Sci Monit | 6/12/2020 | GDC |
| Classification and mutation prediction based on histopathology H&E images in liver cancer using deep learning | NPJ Precis Oncol | 6/8/2020 | GDC |
| The road towards data integration in human genomics: players, steps and interactions | Brief Bioinform | 6/4/2020 | SB-CGC |
| AGO-bound mature miRNAs are oligouridylated by TUTs and subsequently degraded by DIS3L2 | Nat Commun. | 6/2/2020 | SB-CGC |
| Increased number of subclones in lung squamous cell carcinoma elicits overexpression of immune related genes | Transl Lung Cancer Res | 6/1/2020 | GDC |
| Measuring Cancer Hallmark Mediation of the TET1 Glioma Survival Effect with Linked Neural-Network Based Mediation Experiments | Sci Rep | 6/1/2020 | GDC |
| Modern Information Technology for Cancer Research: What’s in IT for Me? An Overview of Technologies and Approaches | Oncology | 6/1/2020 | SB-CGC |
| Systematic Establishment of Robustness and Standards in Patient-Derived Xenograft Experiments and Analysis | Cancer Research | 6/1/2020 | SB-CGC |
| A structural variation reference for medical and population genetics | Nature | 5/27/2020 | Broad - FireCloud |
| Implementing the FAIR Data Principles in precision oncology: review of supporting initiatives | Brief Bioinform | 5/21/2020 | GDC |
| An integrative investigation on significant mutations and their down-stream pathways in lung squamous cell carcinoma reveals CUL3/KEAP1/NRF2 relevant subtypes | Mol Med | 5/20/2020 | GDC |
| Comprehensive Analysis Of Genetic Ancestry And Its Molecular Correlates In Cancer | Cancer Cell | 5/11/2020 | GDC |
| Co-occurrent Alterations of Alzheimer's Genes and Prostate Cancer Genes in Prostate Cancer | Cancer Genomics Proteomics | 5/1/2020 | GDC |
| Proteogenomic Characterization of Ovarian HGSC Implicates Mitotic Kinases, Replication Stress in Observed Chromosomal Instability. | Cell Reports Medicine | 4/21/2020 | PDC |
| Proteogenomic Characterization Of Ovarian Hgsc Implicates Mitotic Kinases, Replication Stress In Observed Chromosomal Instability | Cell Reports Med | 4/21/2020 | PDC |
| Open Health Imaging Foundation Viewer: An Extensible Open-Source Framework for Building Web-Based Imaging Applications to Support Cancer Research | JCO Clin Cancer Inform | 4/4/2020 | ISB-CGC |
| Automatic Staging of Cancer Tumors Using AIM Image Annotations and Ontologies | J Digit Imaging | 4/1/2020 | GDC |
| Whole Exome Sequencing Data Analysis Algorithms in Cancer Diagnostics | Prime Archives of Cancer Research | 3/27/2020 | SB-CGC |
| Deep Proteomics Using Two Dimensional Data Independent Acquisition Mass Spectrometry | Analytical Chemistry | 3/17/2020 | PDC |
| Microbiome analyses of blood and tissues suggest cancer diagnostic approach | Nature | 3/1/20200 | SB-CGC |
| Screening TCGA database for prognostic genes in lower grade glioma microenvironment | Ann Transl Med | 3/1/2020 | GDC |
| Genomic Characterization of Non-Invasive Differentiated-Type Gastric Cancer in the Japanese Population | Cancers (Basel) | 2/22/2020 | GDC |
| Proteogenomic Characterization of Endometrial Carcinoma | Cell | 2/20/2020 | PDC |
| The Pan-Cancer Landscape of Prognostic Germline Variants in 10,582 Patients | Genome Medicine | 2/17/2020 | SB-CGC |
| Immunogenomic Pathways Associated with Cytotoxic Lymphocyte Infiltration and Survival in Colorectal Cancer | BMC Cancer | 2/14/2020 | Broad - FireCloud |
| The Angiosarcoma Project: Enabling Genomic And Clinical Discoveries In A Rare Cancer Through Patient-Partnered Research | Nature Medicine | 2/10/2020 | GDC |
| Steroid Enzyme and Receptor Expression and Regulations in Breast Tumor Samples - A Statistical Evaluation of Public Data | J Steroid Biochem Mol Biol | 2/1/2020 | GDC |
| Loss of Kat2a Enhances Transcriptional Noise and Depletes Acute Myeloid Leukemia Stem-Like Cells | eLife | 1/27/2020 | SB-CGC |
| Microscaled Proteogenomic Methods For Precision Oncology | Nature Communications | 1/27/2020 | PDC |
| Knowledge-Guided Analysis of “Omics” Data Using the KnowEnG Cloud Platform | PLoS | 1/23/2020 | SB-CGC |
| Screening the Cancer Genome Atlas Database for Genes of Prognostic Value in Acute Myeloid Leukemia | Front Oncol | 1/21/2020 | GDC |
| Discovering the Anticancer Potential of Non-Oncology Drugs by Systematic Viability Profiling | Nature Cancer | 1/20/2020 | Broad - FireCloud |
| A Protein‐Centric Approach for Exome Variant Aggregation Enables Sensitive Association Analysis with Clinical Outcomes | Human Mutation | 1/12/2020 | ISB-CGC |
| Building Containerized Workflows Using the BioDepot-Workflow-Builder | Cell Systems | 11/27/2019 | SB-CGC |
| Identification And Analyses Of Extra-Cranial And Cranial Rhabdoid Tumor Molecular Subgroups Reveal Tumors With Cytotoxic T Cell Infiltration | Cell Reports | 11/19/2019 | GDC |
| Genomic Profiling Of Childhood Tumor Patient-Derived Xenograft Models To Enable Rational Clinical Trial Design | Cell Reports | 11/5/2019 | GDC |
| Integrated Proteogenomic Characterization of Clear Cell Renal Cell Carcinoma | Cell | 10/31/2019 | PDC |
| Somatic Truth Data from Cell Lineage | bioRxiv | 10/31/2019 | Broad - FireCloud |
| Cumulus: a cloud-based data analysis framework for large-scale single-cell and single-nucleus RNA-seq | bioRxiv | 10/30/2019 | Broad - FireCloud |
| Identifying Epigenetic Signature of Breast Cancer with Machine Learning | arXiv | 10/12/2019 | ISB-CGC |
| CellBender remove-background: a deep generative model for unsupervised removal of background noise from scRNA-seq datasets | bioRxiv | 10/3/2019 | Broad - FireCloud |
| Integrated Proteogenomic Characterization of HBV-Related Hepatocellular Carcinoma | Cell | 10/3/2019 | PDC |
| Improved detection of gene fusions by applying statistical methods reveals oncogenic RNA cancer drivers | PNAS | 7/30/2019 | SB-CGC |
| Clonal replacement of tumor-specific T cells following PD-1 blockade | Nature Medicine | 7/29/2019 | Broad - FireCloud |
| A cytosine deaminase for programmable single-base RNA editing | Science | 7/26/2019 | Broad - FireCloud |
| Before And After: A Comparison Of Legacy And Harmonized TCGA Data At The Genomic Data Commons | Cell Systems | 7/24/2019 | GDC |
| Read Mapping and Transcript Assembly: A Scalable and High-Throughput Workflow for the Processing and Analysis of Ribonucleic Acid Sequencing Data | Frontiers in Genetics | 6/24/2019 | SB-CGC |
| Achieving reproducibility and accuracy in cancer mutation detection with whole-genome and whole-exome sequencing | bioRxiv | 6/2/2019 | SB-CGC |
| Proteogenomic Analysis Of Human Colon Cancer Reveals New Therapeutic Opportunities | Cell | 5/2/2019 | PDC |
| SNP2SIM: a modular workflow for standardizing molecular simulation and functional analysis of protein variants | BMC Bioinformatics | 5/1/2019 | SB-CGC |
| The Germline Variants rs61757955 and rs34988193 Are Predictive of Survival in Lower Grade Glioma Patients | Molecular Cancer Research | 5/1/2019 | SB-CGC |
| Building Portable and Reproducible Cancer Informatics Workflows: An RNA Sequencing Case Study | Methods Mol Biol | 4/1/2019 | SB-CGC |
| Genome-Wide Discovery Of Somatic Coding And Non-Coding Mutations In Pediatric Endemic And Sporadic Burkitt Lymphoma | Blood | 3/21/2019 | GDC |
| Genetic Mechanisms Of Primary Chemotherapy Resistance In Pediatric Acute Myeloid Leukemia | Leukemia | 2/13/2019 | GDC |
| Data Lakes, Clouds and Commons: A Review of Platforms for Analyzing and Sharing Genomic Data | Trends in Genetics | 1/25/2019 | DCF |
| Pregnancy-Associated Plasma Protein-A (PAPP-A) in Ewing Sarcoma: Role in Tumor Growth and Immune Evasion | JNCI | 1/20/2019 | ISB-CGC |
| Clinical Resistance To Crenolanib In Acute Myeloid Leukemia Due To Diverse Molecular Mechanisms | Nature Communications | 1/16/2019 | GDC |
| Proteogenomic Characterization of Human Early-Onset Gastric Cancer. | Cancer Cell | 1/14/2019 | PDC |
| Proteogenomic Characterization Of Human Early-Onset Gastric Cancer | Cancer Cell | 1/14/2019 | PDC |
| Structural Differences Between Pri-miRNA Paralogs Promote Alternative Drosha Cleavage and Expand Target Repertoires | Cell Reports | 1/8/2019 | SB-CGC |
| restfulSE: A semantically rich interface for cloud-scale genomics with Bioconductor | F1000 Research | 1/7/2019 | ISB-CGC |
| Maximizing the Utility of Cancer Transcriptomic Data | Trends in Cancer Research | 12/4/2018 | SB-CGC |
| Personal Genome Project UK (PGP-UK): a research and citizen science hybrid project in support of personalized medicine | BMC Med Genomics | 11/27/2018 | SB-CGC |
| Lack of detectable neoantigen depletion in the untreated cancer genome | bioRxiv | 11/26/2018 | Broad - FireCloud |
| Clinically Relevant Cytotoxic Immune Cell Signatures And Clonal Expansion Of T-Cell Receptors In High-Risk Mycn-Not-Amplified Human Neuroblastoma | Clinical Cancer Research | 11/15/2018 | GDC |
| Association analysis using somatic mutations | PLOS Genetics | 11/2/2018 | SB-CGC |
| The Chromatin Accessibility Landscape Of Primary Human Cancers | Science | 10/26/2018 | GDC |
| Functional Genomic Landscape Of Acute Myeloid Leukaemia | Nature | 10/17/2018 | GDC |
| Integrative Molecular Characterization Of Malignant Pleural Mesothelioma | Cancer Discovery | 10/15/2018 | GDC |
| QuagmiR: a cloud-based application for isomiR big data analytics | Bioinformatics | 10/9/2018 | SB-CGC |
| Using Semantic Web Technologies to Enable Cancer Genomics Discovery at Petabyte Scale | Cancer Informatics | 9/28/2018 | SB-CGC |
| The Genetic Basis And Cell Of Origin Of Mixed Phenotype Acute Leukaemia | Nature | 9/12/2018 | GDC |
| Multiplatform Integrative Analysis of Immunogenomic Data for Biomarker Discovery | Biomarkers for Immunotherapy of Cancer | 9/10/2018 | ISB-CGC |
| Proteomics, Post-Translational Modifications, And Integrative Analyses Reveal Molecular Heterogeneity Within Medulloblastoma Subgroups | Cancer Cell | 9/10/2018 | PDC |
| Identification of rare-disease genes in diverse undiagnosed cases using whole blood transcriptome sequencing and large control cohorts | bioRxiv | 9/4/2018 | Broad - FireCloud |
| Data Harmonization for a Molecularly Driven Health System | Cell | 8/23/2018 | DCF |
| Comprehensive Analysis Of AlteRNAtive Splicing Across Tumors From 8,705 Patients | Cancer Cell | 8/13/2018 | GDC |
| Recurrent Tumor-Specific Regulation of Alternative Polyadenylation of Cancer-Related Genes | BMC Genomics | 7/13/2018 | ISB-CGC |
| Reproducible Workflow For Multiplexed Deep-Scale Proteome And Phosphoproteome Analysis Of Tumor Tissues By Liquid Chromatography-Mass Spectrometry | Nature Protocols | 7/1/2018 | PDC |
| Evaluation Of NCI-7 Cell Line Panel As A Reference Material For Clinical Proteomics | Journal of Proteome Research | 6/1/2018 | PDC |
| Progress Towards Cancer Data Ecosystems | Cancer J | 5/30/2018 | DCF |
| Mass Spectrometry-Based Proteomics Reveals Potential Roles Of Nek9 And Map2K4 In Resistance To Pi3K Inhibition In Triple-Negative Breast Cancers | Cancer Research | 5/15/2018 | PDC |
| The Immune Landscape of Cancer | Immunity | 4/17/2018 | ISB-CGC, SB-CGC |
| Genetics And Pathogenesis Of Diffuse Large B Cell Lymphoma | New England Journal of Medicine | 4/12/2018 | GDC |
| A Comprehensive Pan-Cancer Molecular Study Of Gynecologic And Breast Cancers | Cancer Cell | 4/9/2018 | GDC |
| Comparative Molecular Analysis Of Gastrointestinal Adenocarcinomas | Cancer Cell | 4/9/2018 | GDC |
| Genomic And Functional Approaches To Understanding Cancer Aneuploidy | Cancer Cell | 4/9/2018 | GDC |
| A Pan-Cancer Analysis Of Enhancer Expression In Nearly 9000 Patient Samples | Cell | 4/5/2018 | GDC |
| An Integrated TCGA Pan-Cancer Clinical Data Resource To Drive High Quality Survival Outcome Analytics | Cell | 4/5/2018 | GDC |
| Cell-Of-Origin Patterns Dominate The Molecular Classification Of 10,000 Tumors From 33 Types Of Cancer | Cell | 4/5/2018 | GDC |
| Comprehensive Characterization Of Cancer Driver Genes And Mutations | Cell | 4/5/2018 | GDC |
| Machine Learning Identifies Stemness Features Associated With Oncogenic Dedifferentiation | Cell | 4/5/2018 | GDC |
| Oncogenic Signaling Pathways In The Cancer Genome Atlas | Cell | 4/5/2018 | GDC |
| Pathogenic Germline Variants In 10,389 Adult Cancers | Cell | 4/5/2018 | GDC |
| Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images | Cell Reports | 4/3/2018 | ISB-CGC |
| Genomic And Molecular Landscape Of DNA Damage Repair Deficiency Across The Cancer Genome Atlas | Cell Reports | 4/3/2018 | GDC |
| Genomic, Pathway Network, And Immunologic Features Distinguishing Squamous Carcinomas | Cell Reports | 4/3/2018 | GDC |
| Integrated Genomic Analysis Of The Ubiquitin Pathway Across Cancer Types | Cell Reports | 4/3/2018 | GDC |
| Machine Learning Detects Pan-Cancer Ras Pathway Activation In The Cancer Genome Atlas | Cell Reports | 4/3/2018 | GDC |
| Molecular Characterization And Clinical Relevance Of Metabolic Expression Subtypes In Human Cancers | Cell Reports | 4/3/2018 | GDC |
| Pan-Cancer Analysis Of LncRNA Regulation Supports Their Targeting Of Cancer Genes In Each Tumor Context | Cell Reports | 4/3/2018 | GDC |
| Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines | Cell Systems | 3/28/2018 | ISB-CGC |
| Pan-Cancer Alterations Of The Myc Oncogene And Its Proximal Network Across The Cancer Genome Atlas | Cell Systems | 3/28/2018 | GDC |
| Pan-Cancer Genome And Transcriptome Analyses Of 1699 Paediatric Leukaemias And Solid Tumours | Nature | 3/15/2018 | GDC |
| The Integrated Genomic Landscape Of Thymic Epithelial Tumors | Cancer Cell | 2/12/2018 | GDC |
| Genomics In Childhood Acute Myeloid Leukemia Comes Of Age | Nature Medicine | 1/9/2018 | GDC |
| The Molecular Landscape Of Pediatric Acute Myeloid Leukemia Reveals Recurrent Structural Alterations And Age-Specific Mutational Interactions | Nature Medicine | 12/11/2017 | GDC |
| MicroRNA Expression-Based Model Indicates Event-Free Survival In Pediatric Acute Myeloid Leukemia | Journal of Clinical Oncology | 12/10/2017 | GDC |
| Using the Seven Bridges Cancer Genomics Cloud to access and analyze petabytes of cancer data | Current Protocols in Bioinformatics | 12/8/2017 | SB-CGC |
| Comprehensive And Integrated Genomic Characterization Of Adult Soft Tissue Sarcomas | Cell | 11/2/2017 | GDC |
| The Cancer Genomics Cloud: Collaborative, reproducible, and democratized—a new paradigm in large-scale computational research | Cancer Research | 11/1/2017 | SB-CGC |
| The ISB Cancer Genomic Cloud: A Flexible Cloud-Based Platform for Cancer Genomic Research | Cancer Research | 11/1/2017 | ISB-CGC |
| Comprehensive Molecular Characterization Of Muscle-Invasive Bladder Cancer | Cell | 10/19/2017 | GDC |
| A Comprehensive Infrastructure for Big Data in Cancer Research: Accelerating Cancer Research and Precision Medicine | Front Cell Dev Biol. | 9/21/2017 | NCI |
| APOBEC3A is an oral cancer prognostic biomarker in Taiwanese carriers of an APOBEC deletion polymorphism | Nat Commun. | 9/6/2017 | PDC |
| A Children's Oncology Group And Target Initiative Exploring The Genetic Landscape Of Wilms Tumor | Nature Genetics | 8/21/2017 | GDC |
| Precise, pan-cancer discovery of gene fusions reveals a signature of selection in primary tumors | bioRxiv | 8/18/2017 | SB-CGC |
| Integrated Genomic Characterization Of Pancreatic Ductal Adenocarcinoma | Cancer Cell | 8/14/2017 | GDC |
| Integrative Analysis Identifies Four Molecular And Clinical Subsets In Uveal Melanoma | Cancer Cell | 8/14/2017 | GDC |
| The NCI Genomic Data Commons As An Engine For Precision Medicine | Blood | 7/27/2017 | GDC |
| The Genomic Landscape Of Pediatric And Young Adult T-Lineage Acute Lymphoblastic Leukemia | Nature Genetics | 7/3/2017 | GDC |
| Integrative Genomic Analysis Of Cholangiocarcinoma Identifies Distinct Idh-Mutant Molecular Profiles | Cell Reports | 6/27/2017 | GDC |
| Comprehensive And Integrative Genomic Characterization Of Hepatocellular Carcinoma | Cell | 6/15/2017 | GDC |
| Biomarker Significance Of Plasma And Tumor Mir-21, Mir-221, And Mir-106A In Osteosarcoma | Oncotarget | 5/27/2017 | GDC |
| Proteogenomic Integration Reveals Therapeutic Targets In Breast Cancer Xenografts | Nature Communications | 3/28/2017 | PDC |
| Integrated Genomic And Molecular Characterization Of Cervical Cancer | Nature | 3/16/2017 | GDC |
| Integrated Molecular Characterization Of Uterine Carcinosarcoma | Cancer Cell | 3/13/2017 | GDC |
| Comprehensive Molecular Characterization Of Pheochromocytoma And Paraganglioma | Cancer Cell | 2/13/2017 | GDC |
| Integrated Genomic Characterization Of Oesophageal Carcinoma | Nature | 1/12/2017 | GDC |
| Significance Of Tp53 Mutation In Wilms Tumors With Diffuse Anaplasia: A Report From The Children'S Oncology Group | Clinical Cancer Research | 11/15/2016 | GDC |
| Toward A Shared Vision For Cancer Genomic Data | New England Journal of Medicine | 9/22/2016 | GDC |
| Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer | Cell | 7/28/2016 | PDC |
| Csf3R Mutations Have A High Degree Of Overlap With Cebpa Mutations In Pediatric Aml | Blood | 6/16/2016 | GDC |
| Proteogenomics Connects Somatic Mutations To Signalling In Breast Cancer | Nature | 6/2/2016 | PDC |
| Proteogenomics Connects Somatic Mutations to Signalling in Breast Cancer. | Nature | 5/25/2016 | PDC |
| Comprehensive Pan-Genomic Characterization Of Adrenocortical Carcinoma | Cancer Cell | 5/9/2016 | GDC |
| Genomic Profiling Of Pediatric Acute Myeloid Leukemia Reveals A Changing Mutational Landscape From Disease Diagnosis To Relapse | Cancer Res | 4/15/2016 | GDC |
| Genome-Wide Profiles Of Extra-Cranial Malignant Rhabdoid Tumors Reveal Heterogeneity And Dysregulated Developmental Pathways | Cancer Cell | 3/14/2016 | GDC |
| Molecular Profiling Reveals Biologically Discrete Subsets And Pathways Of Progression In Diffuse Glioma | Cell | 1/28/2016 | GDC |
| Comprehensive Molecular Characterization Of Papillary Renal Cell Carcinoma | New England Journal of Medicine | 1/14/2016 | GDC |
| Genetic Predisposition To Neuroblastoma Mediated By A Lmo1 Super-Enhancer Polymorphism | Nature | 12/17/2015 | GDC |
| Mllt1 Yeats Domain Mutations In Clinically Distinctive Favourable Histology Wilms Tumours | Nature Communications | 12/4/2015 | GDC |
| The Molecular Taxonomy Of Primary Prostate Cancer | Cell | 11/5/2015 | GDC |
| Comprehensive Molecular Portraits Of Invasive Lobular Breast Cancer | Cell | 10/8/2015 | GDC |
| Proteomic analysis of colon and rectal carcinoma using standard and customized databases | Scientific Data | 7/21/2015 | PDC |
| Tcf21 Hypermethylation In Genetically Quiescent Clear Cell Sarcoma Of The Kidney | Oncotarget | 6/30/2015 | GDC |
| Relapsed Neuroblastomas Show Frequent Ras-Mapk Pathway Mutations Read The Full Article | Nature Genetics | 6/29/2015 | GDC |
| Comprehensive And Integrative Genomic Characterization Of Diffuse Lower Grade Gliomas | New England Journal of Medicine | 6/25/2015 | GDC |
| Genomic Classification Of Cutaneous Melanoma | Cell | 6/18/2015 | GDC |
| Rise And Fall Of Subclones From Diagnosis To Relapse In Pediatric B-Acute Lymphoblastic Leukaemia | Nature Communications | 3/19/2015 | GDC |
| Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps | Nature Medicine | 3/2/2015 | PDC |
| Recurrent Dgcr8, Drosha, And Six Homeodomain Mutations In Favorable Histology Wilms Tumors | Cancer Cell | 2/9/2015 | GDC |
| Comprehensive Genomic Characterization Of Head And Neck Squamous Cell Carcinomas | Nature | 1/29/2015 | GDC |
| Integrated Genomic Characterization Of Papillary Thyroid Carcinoma | Cell | 10/23/2014 | GDC |
| Comprehensive Molecular Characterization Of Gastric Adenocarcinoma | Nature | 9/11/2014 | GDC |
| Targetable Kinase-Activating Lesions In Ph-Like Acute Lymphoblastic Leukemia | New England Journal of Medicine | 9/11/2014 | GDC |
| The Somatic Genomic Landscape Of Chromophobe Renal Cell Carcinoma | Cancer Cell | 9/8/2014 | GDC |
| Multiplatform Analysis Of 12 Cancer Types Reveals Molecular Classification Within And Across Tissues Of Origin | Cell | 8/14/2014 | GDC |
| Comprehensive Molecular Profiling Of Lung Adenocarcinoma | Nature | 7/31/2014 | GDC |
| Comprehensive Molecular Characterization Of Urothelial Bladder Carcinoma | Nature | 3/20/2014 | GDC |
| The Somatic Genomic Landscape Of Glioblastoma | Cell | 10/10/2013 | GDC |
| Mutational And Structural Analysis Of Diffuse Large B-Cell Lymphoma Using Whole-Genome SequeNCIng | Blood | 8/15/2013 | GDC |
| Comprehensive Molecular Characterization Of Clear Cell Renal Cell Carcinoma | Nature | 7/4/2013 | GDC |
| Genomic And Epigenomic Landscapes Of Adult De Novo Acute Myeloid Leukemia | New England Journal of Medicine | 5/30/2013 | GDC |
| Analysis Of Foxo1 Mutations In Diffuse Large B-Cell Lymphoma | Blood | 5/2/2013 | GDC |
| Integrated Genomic Characterization Of Endometrial Carcinoma | Nature | 5/2/2013 | GDC |
| The Genetic Landscape Of High-Risk Neuroblastoma | Nature Genetics | 1/20/2013 | GDC |
| Tyrosine Kinome SequeNCIng Of Pediatric Acute Lymphoblastic Leukemia: A Report From The Children'S Oncology Group Target Project | Blood | 1/17/2013 | GDC |
| Prognostically Relevant Gene Signatures Of High-Grade Serous Ovarian Carcinoma | The Journal of Clinical Investigation | 12/21/2012 | GDC |
| Comprehensive Molecular Portraits Of Human Breast Tumors | Nature | 10/4/2012 | GDC |
| Comprehensive Genomic Characterization Of Squamous Cell Lung Cancers | Nature | 9/27/2012 | GDC |
| Genetic Alterations Activating Kinase And Cytokine Receptor Signaling In High-Risk Acute Lymphoblastic Leukemia | Cancer Cell | 8/14/2012 | GDC |
| Comprehensive Molecular Characterization Of Human Colon And Rectal Cancer | Nature | 7/18/2012 | GDC |
| Tbl1Xr1/Tp63: A Novel Recurrent Gene Fusion In B-Cell Non-Hodgkin Lymphoma | Blood | 5/24/2012 | GDC |
| The Molecular Genetic Makeup Of Acute Lymphoblastic Leukemia | Hematology: American Society of Hematology Education Program | 1/1/2012 | GDC |
| Key Pathways Are Frequently Mutated In High-Risk Childhood Acute Lymphoblastic Leukemia: A Report From The Children'S Oncology Group | Blood | 9/15/2011 | GDC |
| Frequent Mutation Of Histone-Modifying Genes In Non-Hodgkin Lymphoma | Nature | 7/27/2011 | GDC |
| Integrated Genomic Analyses Of Ovarian Carcinoma | Nature | 6/29/2011 | GDC |
| Ancestry And Pharmacogenomics Of Relapse In Acute Lymphoblastic Leukemia | Nature Genetics | 2/6/2011 | GDC |
| Identification Of Novel Cluster Groups In Pediatric High-Risk B-Precursor Acute Lymphoblastic Leukemia With Gene Expression Profiling: Correlation With Genome-Wide DNA Copy Number Alterations, Clinical Characteristics, And Outcome | Blood | 12/2/2010 | GDC |
| Rearrangement Of Crlf2 Is Associated With Mutation Of Jak Kinases, Alteration Of Ikzf1, Hispanic/Latino Ethnicity, And A Poor Outcome In Pediatric B-Progenitor Acute Lymphoblastic Leukemia | Blood | 7/1/2010 | GDC |
| Identification Of A Cpg Island Methylator Phenotype That Defines A Distinct Subgroup Of Glioma | Cancer Cell | 5/18/2010 | GDC |
| Gene Expression Classifiers For Relapse-Free Survival And Minimal Residual Disease Improve Risk Classification And Outcome Prediction In Pediatric B-Precursor Acute Lymphoblastic Leukemia | Blood | 2/18/2010 | GDC |
| An Integrated Genomic Analysis Identifies Clinically Relevant Subtypes Of Glioblastoma Characterized By Abnormalities In Pdgfra, Idh1, Egfr And Nf1 | Cancer Cell | 1/19/2010 | GDC |
| Somatic Mutations Altering Ezh2 (Tyr641) In Follicular And Diffuse Large B-Cell Lymphomas Of Germinal-Center Origin | Nature Genetics | 1/17/2010 | GDC |
| Jak Mutations In High-Risk Childhood Acute Lymphoblastic Leukemia | Proceedings of the National Academy of Sciences of the United States of America | 6/9/2009 | GDC |
| Deletion Of Ikzf1 And Prognosis In Acute Lymphoblastic Leukemia | New England Journal of Medicine | 1/29/2009 | GDC |
| Comprehensive Genomic Characterization Defines Human Glioblastoma Genes And Core Pathways | Nature | 10/23/2008 | GDC |