
Professor
Neurological Surgery
+1 415 514-1183
Joseph Costello, PhD studies the onset of tumorigenesis with an emphasis on discovering the mechanisms by which genes accumulate changes that may activate or inactivate tumor genes.
Publications
Spatial 3D genome organization reveals intratumor heterogeneity in primary glioblastoma samples.
Science advances
Longitudinal profiling of IDH-mutant astrocytomas reveals acquired RAS-MAPK pathway mutations associated with inferior survival.
Neuro-oncology advances
Molecular biomarkers for assessing the heat-adapted phenotype: a narrative scoping review.
The journal of physiological sciences : JPS
Activating the dark genome to illuminate cancer vaccine targets.
Nature genetics
Functional Electrical Stimulation and Brain-Machine Interfaces for Simultaneous Control of Wrist and Finger Flexion.
bioRxiv : the preprint server for biology
Quantitative assessment of preanalytic variables on clinical evaluation of PI3/AKT/mTOR signaling activity in diffuse glioma.
Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc
Whole tumor analysis reveals early origin of the TERT promoter mutation and intercellular heterogeneity in TERT expression.
Neuro-oncology
Deconstructing Intratumoral Heterogeneity through Multiomic and Multiscale Analysis of Serial Sections.
bioRxiv : the preprint server for biology
Challenges in the discovery of tumor-specific alternative splicing-derived cell-surface antigens in glioma.
Scientific reports
Artificial neural network for brain-machine interface consistently produces more naturalistic finger movements than linear methods.
bioRxiv : the preprint server for biology
"De novo replication repair deficient glioblastoma, IDH-wildtype" is a distinct glioblastoma subtype in adults that may benefit from immune checkpoint blockade.
Acta neuropathologica
Novel SOX10 indel mutations drive schwannomas through impaired transactivation of myelination gene programs.
Neuro-oncology
Challenges in the discovery of tumor-specific alternative splicing-derived cell-surface antigens in glioma.
bioRxiv : the preprint server for biology
Tumor-wide RNA splicing aberrations generate immunogenic public neoantigens.
bioRxiv : the preprint server for biology
Molecular biomarkers for assessing the heat-adapted phenotype: a narrative scoping review.
The journal of physiological sciences : JPS
Balancing Memorization and Generalization in RNNs for High Performance Brain-Machine Interfaces.
bioRxiv : the preprint server for biology
Zinc Finger MYND-Type Containing 8 (ZMYND8) is epigenetically regulated in mutant Isocitrate Dehydrogenase 1 (IDH1) glioma to promote radioresistance.
Clinical cancer research : an official journal of the American Association for Cancer Research
Hyperpolarized d-[1- 13C]gluconolactone imaging visualizes response to TERT or GABPB1 targeting therapy for glioblastoma.
Scientific reports
Single-cell RNA sequencing and spatial transcriptomics reveal cancer-associated fibroblasts in glioblastoma with protumoral effects.
The Journal of clinical investigation
TERT promoter C228T mutation in neural progenitors confers growth advantage following telomere shortening in vivo.
Neuro-oncology
Real-time brain-machine interface in non-human primates achieves high-velocity prosthetic finger movements using a shallow feedforward neural network decoder.
Nature communications
Conserved features of TERT promoter duplications reveal an activation mechanism that mimics hotspot mutations in cancer.
Nature communications
PI3K/AKT/mTOR signaling pathway activity in IDH-mutant diffuse glioma and clinical implications.
Neuro-oncology
Deuterium Metabolic Imaging Reports on TERT Expression and Early Response to Therapy in Cancer.
Clinical cancer research : an official journal of the American Association for Cancer Research
Multiplatform molecular analyses refine classification of gliomas arising in patients with neurofibromatosis type 1.
Acta neuropathologica
Meningioma DNA methylation groups identify biological drivers and therapeutic vulnerabilities.
Nature genetics
Publisher Correction: Epigenomic contributions to tumor cell heterogeneity and plasticity.
Nature genetics
The Placenta - Fast, Loose, and in Control.
The New England journal of medicine
Human placental cytotrophoblast epigenome dynamics over gestation and alterations in placental disease.
Developmental cell
Functional analysis of low-grade glioma genetic variants predicts key target genes and transcription factors.
Neuro-oncology
Cancer-specific loss of TERT activation sensitizes glioblastoma to DNA damage.
Proceedings of the National Academy of Sciences of the United States of America
miRNA-independent function of long noncoding pri-miRNA loci.
Proceedings of the National Academy of Sciences of the United States of America
Non-invasive assessment of telomere maintenance mechanisms in brain tumors.
Nature communications
Prostate Cancer Progression and the Epigenome.
The New England journal of medicine
MGMT promoter methylation level in newly diagnosed low-grade glioma is a predictor of hypermutation at recurrence.
Neuro-oncology
Multiplatform genomic profiling and magnetic resonance imaging identify mechanisms underlying intratumor heterogeneity in meningioma.
Nature communications
Glutamate Is a Noninvasive Metabolic Biomarker of IDH1-Mutant Glioma Response to Temozolomide Treatment.
Cancer research
Patient-derived cells from recurrent tumors that model the evolution of IDH-mutant glioma.
Neuro-oncology advances
The DNA methylation landscape of advanced prostate cancer.
Nature genetics
Gliomas arising in the setting of Li-Fraumeni syndrome stratify into two molecular subgroups with divergent clinicopathologic features.
Acta neuropathologica
Multiplatform Molecular Profiling Reveals Epigenomic Intratumor Heterogeneity in Ependymoma.
Cell reports
Proceedings of the Comprehensive Oncology Network Evaluating Rare CNS Tumors (NCI-CONNECT) Oligodendroglioma Workshop.
Neuro-oncology advances
Saturation mutagenesis of twenty disease-associated regulatory elements at single base-pair resolution.
Nature communications
Recurrent KBTBD4 small in-frame insertions and absence of DROSHA deletion or DICER1 mutation differentiate pineal parenchymal tumor of intermediate differentiation (PPTID) from pineoblastoma.
Acta neuropathologica
Corrigendum to "Effect of acute hypoxia on cognition: A systematic review and meta-regression analysis" Neurosci. Biobehav. Rev. 74 (2017) 225-232.
Neuroscience and biobehavioral reviews
Genomic Profiling of BDE-47 Effects on Human Placental Cytotrophoblasts.
Toxicological sciences : an official journal of the Society of Toxicology
Temozolomide-associated hypermutation in gliomas.
Neuro-oncology
To ERV Is Human: A Phenotype-Wide Scan Linking Polymorphic Human Endogenous Retrovirus-K Insertions to Complex Phenotypes.
Frontiers in genetics
Genomic analysis of the origins and evolution of multicentric diffuse lower-grade gliomas.
Neuro-oncology
Genome-wide DNA methylation is predictive of outcome in juvenile myelomonocytic leukemia.
Nature communications
Clonal expansion and epigenetic reprogramming following deletion or amplification of mutant IDH1.
Proceedings of the National Academy of Sciences of the United States of America
Treatment-Induced Mutagenesis and Selective Pressures Sculpt Cancer Evolution.
Cold Spring Harbor perspectives in medicine
DNA methylation: an epigenetic mark of cellular memory.
Experimental & molecular medicine
Isocitrate dehydrogenase mutations suppress STAT1 and CD8+ T cell accumulation in gliomas.
The Journal of clinical investigation
Chemotherapy for adult low-grade gliomas: clinical outcomes by molecular subtype in a phase II study of adjuvant temozolomide.
Neuro-oncology
Effect of acute hypoxia on cognition: A systematic review and meta-regression analysis.
Neuroscience and biobehavioral reviews
Mutant IDH1 Expression Drives TERT Promoter Reactivation as Part of the Cellular Transformation Process.
Cancer research
Somatic and Germline TP53 Alterations in Second Malignant Neoplasms from Pediatric Cancer Survivors.
Clinical cancer research : an official journal of the American Association for Cancer Research
Mutant IDH1 expression is associated with down-regulation of monocarboxylate transporters.
Oncotarget
Intratumoral Heterogeneity of the Epigenome.
Cancer cell
Mapping of Variable DNA Methylation Across Multiple Cell Types Defines a Dynamic Regulatory Landscape of the Human Genome.
G3 (Bethesda, Md.)
Understanding TERT Promoter Mutations: A Common Path to Immortality.
Molecular cancer research : MCR
The genomic landscape of juvenile myelomonocytic leukemia.
Nature genetics
Cancer. The transcription factor GABP selectively binds and activates the mutant TERT promoter in cancer.
Science (New York, N.Y.)
Epigenomic annotation of genetic variants using the Roadmap Epigenome Browser.
Nature biotechnology
Evolution of DNA repair defects during malignant progression of low-grade gliomas after temozolomide treatment.
Acta neuropathologica
Epigenetic and transcriptional determinants of the human breast.
Nature communications
Intermediate DNA methylation is a conserved signature of genome regulation.
Nature communications
The genetics of splicing in neuroblastoma.
Cancer discovery
Regulatory network decoded from epigenomes of surface ectoderm-derived cell types.
Nature communications
Transcription restores DNA repair to heterochromatin, determining regional mutation rates in cancer genomes.
Cell reports
A single-institution phase II trial of radiation, temozolomide, erlotinib, and bevacizumab for initial treatment of glioblastoma.
Neuro-oncology
methylC Track: visual integration of single-base resolution DNA methylation data on the WashU EpiGenome Browser.
Bioinformatics (Oxford, England)
Whole-body cryotherapy: empirical evidence and theoretical perspectives.
Open access journal of sports medicine
Paediatric and adult glioblastoma: multiform (epi)genomic culprits emerge.
Nature reviews. Cancer
ALEA: a toolbox for allele-specific epigenomics analysis.
Bioinformatics (Oxford, England)
Mutational analysis reveals the origin and therapy-driven evolution of recurrent glioma.
Science (New York, N.Y.)
Response of primary glioblastoma cells to therapy is patient specific and independent of cancer stem cell phenotype.
Neuro-oncology
Where are we now? And where are we going? A report from the Accelerate Brain Cancer Cure (ABC2) low-grade glioma research workshop.
Neuro-oncology
Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins.
Nature biotechnology
Early epigenetic downregulation of WNK2 kinase during pancreatic ductal adenocarcinoma development.
Oncogene
Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods.
Genome research
Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm.
Genome research
Cancer Stem Cells Activate STAT3 the EZ Way.
Cancer cell
DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape.
Nature genetics
Methods for cancer epigenome analysis.
Advances in experimental medicine and biology
A blueprint for an international cancer epigenome consortium. A report from the AACR Cancer Epigenome Task Force.
Cancer research
Loss of WNK2 expression by promoter gene methylation occurs in adult gliomas and triggers Rac1-mediated tumour cell invasiveness.
Human molecular genetics
Spark: a navigational paradigm for genomic data exploration.
Genome research
Genetic and epigenetic regulation of the organic cation transporter 3, SLC22A3.
The pharmacogenomics journal
The Human Epigenome Browser at Washington University.
Nature methods
Epigenetic silencing of MIR203 in multiple myeloma.
British journal of haematology
Incomplete DNA methylation underlies a transcriptional memory of somatic cells in human iPS cells.
Nature cell biology
The A/G allele of rs16906252 predicts for MGMT methylation and is selectively silenced in premalignant lesions from smokers and in lung adenocarcinomas.
Clinical cancer research : an official journal of the American Association for Cancer Research
Characterization of the contradictory chromatin signatures at the 3' exons of zinc finger genes.
PloS one
The NIH Roadmap Epigenomics Mapping Consortium.
Nature biotechnology
Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications.
Nature biotechnology
Genome-scale DNA methylation analysis.
Epigenomics
Reversing HOXA9 oncogene activation by PI3K inhibition: epigenetic mechanism and prognostic significance in human glioblastoma.
Cancer research
A first look at entire human methylomes.
Nature biotechnology
Epigenetics of neurological cancers.
Future oncology (London, England)
The transversus abdominis plane block, when used as part of a multimodal regimen inclusive of intrathecal morphine, does not improve analgesia after cesarean delivery.
Regional anesthesia and pain medicine
Molecular epigenetics and genetics in neuro-oncology.
Neurotherapeutics : the journal of the American Society for Experimental NeuroTherapeutics
Epigenetic mechanisms in glioblastoma multiforme.
Seminars in cancer biology
Food allergy is associated with an increased risk of asthma.
Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology
Restriction landmark genomic scanning: analysis of CpG islands in genomes by 2D gel electrophoresis.
Methods in molecular biology (Clifton, N.J.)
Epigenetic silencing of the kinase tumor suppressor WNK2 is tumor-type and tumor-grade specific.
Neuro-oncology
Familial aggregation of food allergy and sensitization to food allergens: a family-based study.
Clinical and experimental allergy : journal of the British Society for Allergy and Clinical Immunology
Cesarean delivery under ultrasound-guided spinal anesthesia [corrected] in a parturient with poliomyelitis and Harrington instrumentation.
Canadian journal of anaesthesia = Journal canadien d'anesthesie
Transversus abdominis plane block in a patient with debilitating pain from an abdominal wall hematoma following cesarean delivery.
Anesthesia and analgesia
Molecular signatures define two main classes of meningiomas.
Molecular cancer
Epigenome scans and cancer genome sequencing converge on WNK2, a kinase-independent suppressor of cell growth.
Proceedings of the National Academy of Sciences of the United States of America
Genome-epigenome interactions in cancer.
Human molecular genetics
Tumor suppressor p16INK4A regulates polycomb-mediated DNA hypermethylation in human mammary epithelial cells.
The Journal of biological chemistry
A broad band of silence.
Nature genetics
Lack of germ-line promoter methylation in BRCA1-negative families with familial breast cancer.
Genetic testing
Epigenome analyses using BAC microarrays identify evolutionary conservation of tissue-specific methylation of SHANK3.
Nature genetics
Shared epigenetic mechanisms in human and mouse gliomas inactivate expression of the growth suppressor SLC5A8.
Cancer research
Comparative epigenomics of leukemia.
Nature genetics
Phosphatase and tensin homologue growth suppression without phosphatase.
Proceedings of the National Academy of Sciences of the United States of America
The contribution of genetic and epigenetic mechanisms to gene silencing in oligodendrogliomas.
Cancer research
SOCS-3 is frequently silenced by hypermethylation and suppresses cell growth in human lung cancer.
Proceedings of the National Academy of Sciences of the United States of America
Predicting aberrant CpG island methylation.
Proceedings of the National Academy of Sciences of the United States of America
DNA methylation in brain development and gliomagenesis.
Frontiers in bioscience : a journal and virtual library
Integrated genomic and epigenomic analyses pinpoint biallelic gene inactivation in tumors.
Nature genetics
Methylation matters: a new spin on maspin.
Nature genetics
Restriction landmark genome scanning.
Methods (San Diego, Calif.)
Restriction landmark genome scanning.
Methods in molecular biology (Clifton, N.J.)
Excessive CpG island hypermethylation in cancer cell lines versus primary human malignancies.
Human molecular genetics
Novel methylation targets in de novo acute myeloid leukemia with prevalence of chromosome 11 loci.
Blood
Methylation matters.
Journal of medical genetics
Gene amplification in PNETs/medulloblastomas: mapping of a novel amplified gene within the MYCN amplicon.
Journal of medical genetics
Aberrant methylation of genes in low-grade astrocytomas.
Brain tumor pathology
Methylation of discrete regions of the O6-methylguanine DNA methyltransferase (MGMT) CpG island is associated with heterochromatinization of the MGMT transcription start site and silencing of the gene.
Molecular and cellular biology
An arrayed human not I-EcoRV boundary library as a tool for RLGS spot analysis.
DNA research : an international journal for rapid publication of reports on genes and genomes
Cyclin-dependent kinase 6 (CDK6) amplification in human gliomas identified using two-dimensional separation of genomic DNA.
Cancer research
Methylation of CpG island transcription factor binding sites is unnecessary for aberrant silencing of the human MGMT gene.
The Journal of biological chemistry
Silencing of p16/CDKN2 expression in human gliomas by methylation and chromatin condensation.
Cancer research
O6-methylguanine-DNA methyltransferase in tumors and cells of the oligodendrocyte lineage.
The Canadian journal of neurological sciences. Le journal canadien des sciences neurologiques
Methylation-related chromatin structure is associated with exclusion of transcription factors from and suppressed expression of the O-6-methylguanine DNA methyltransferase gene in human glioma cell lines.
Molecular and cellular biology
Graded methylation in the promoter and body of the O6-methylguanine DNA methyltransferase (MGMT) gene correlates with MGMT expression in human glioma cells.
The Journal of biological chemistry
Direct correlation between methylation status and expression of the human O-6-methylguanine DNA methyltransferase gene.
Cancer communications
Bombesin immunoreactive neurons in the hypothalamic paraventricular nucleus innervate the dorsal vagal complex in the rat.
Brain research
Metropolitan forensic anthropology team (MFAT) case studies in identification: 3. Identification of John J. Sullivan, the missing journalist.
Journal of forensic sciences
Glucose utilization and production by the dog kidney in vivo in metabolic acidosis and alkalosis.
The Journal of clinical investigation