Adam Kraya
A5025217932- Glioma Diagnosis and Treatment
- ATP Synthase and ATPases Research
- Pancreatic and Hepatic Oncology Research
- Radiomics and Machine Learning in Medical Imaging
- BRCA gene mutations in cancer
- Cancer Genomics and Diagnostics
- Neuroblastoma Research and Treatments
- DNA Repair Mechanisms
- Ferroptosis and cancer prognosis
- PARP inhibition in cancer therapy
- Cancer, Hypoxia, and Metabolism
- Cancer Immunotherapy and Biomarkers
- RNA modifications and cancer
- Immunotherapy and Immune Responses
- RNA Research and Splicing
- Medical Imaging Techniques and Applications
- Ovarian cancer diagnosis and treatment
- Autophagy in Disease and Therapy
- Food Allergy and Anaphylaxis Research
- Dermatology and Skin Diseases
- Protein Degradation and Inhibitors
- Allergic Rhinitis and Sensitization
- Cancer-related molecular mechanisms research
- Sarcoma Diagnosis and Treatment
- Brain Metastases and Treatment
Children's Hospital of Philadelphia
2021-2025
University of Pennsylvania
2014-2025
George Washington University
2025
University of California, San Francisco
2025
The Wistar Institute
2014
Philadelphia University
2014
Center for Systems Biology
2014
Institute of Molecular Biology and Biophysics
2014
Complete loss of BRCA1 or BRCA2 function is associated with sensitivity to DNA damaging agents. However, not all and germline mutation-associated tumors respond. Herein we report analyses 160 breast ovarian tumors. Retention the normal allele (absence locus-specific heterozygosity (LOH)) observed in 7% ovarian, 16% 10% breast, 46% These have equivalent homologous recombination deficiency scores sporadic tumors, significantly lower than LOH (ovarian, P = 0.0004; < 0.0001, two-tailed Student's...
Macroautophagy, a catabolic process of cellular self-digestion, is an important tumor cell survival mechanism and potential target in antineoplastic therapies. Recent discoveries have implicated autophagy the secretory process, but roles autophagy-mediated secretion modifying microenvironment are poorly understood. Furthermore, efforts to inhibit clinical trials been hampered by suboptimal methods quantitatively measure levels. Here, we leveraged autophagy-based involvement identify shed...
Breast cancers with BRCA1/2 alterations have a relatively high mutational load, suggesting that immune checkpoint blockade may be potential treatment option. However, the degree of cell infiltration varies widely, and molecular features contributing to this variability remain unknown.We hypothesized genomic signatures might predict immunogenicity in breast cancers. Using The Cancer Genome Atlas (TCGA) data, we compared (89) without (770) either germline or somatic alterations. We also...
PNOC003 is a multicenter precision medicine trial for children and young adults with newly diagnosed diffuse intrinsic pontine glioma (DIPG).
Pediatric brain and spinal cancers are collectively the leading disease-related cause of death in children; thus, we urgently need curative therapeutic strategies for these tumors. To accelerate such discoveries, Children's Brain Tumor Network (CBTN) Pacific Neuro-Oncology Consortium (PNOC) created a systematic process tumor biobanking, model generation, sequencing with immediate access to harmonized data. We leverage data establish OpenPBTA, an open collaborative project over 40 scalable...
Atopic dermatitis (AD) is a common chronic illness that has been associated with variation in the filaggrin gene (FLG). Four variants are most often evaluated.To comprehensively describe and compare results from targeted sequencing of FLG loss-of-function (LoF) children African European ancestry association these onset persistence AD.This prospective US cohort study assessed genetic subcohort Pediatric Eczema Elective Registry (PEER). Children mild to moderate AD were included analysis....
Abstract Recurrence is a major cause of death among BRCA1/2 mutation carriers with breast (BrCa) and ovarian cancers (OvCa). Herein we perform multi-omic sequencing on 67 paired primary recurrent BrCa OvCa from 27 to identify potential recurrence-specific drivers. PARP1 amplifications are identified in recurrences (False Discovery Rate q = 0.05), significantly overexpressed across OvCa, independent amplification status. RNA analysis finds two BRCA2 isoforms, BRCA2-201/Long BRCA2-001/Short ,...
The PNOC001 phase II single-arm trial sought to estimate progression-free survival (PFS) associated with everolimus therapy for progressive/recurrent pediatric low-grade glioma (pLGG) on the basis of phosphatidylinositol 3-kinase (PI3K)/AKT/mammalian target rapamycin (mTOR) pathway activation as measured by phosphorylated-ribosomal protein S6 and identify prognostic predictive biomarkers.
<h3>ABSTRACT</h3> <h3>BACKGROUND AND PURPOSE:</h3> Cancers show heterogeneity at various levels, from genome to radiological imaging. This study aimed explore the interplay between genomic, transcriptomic, and radiophenotypic data in pediatric low-grade glioma (pLGG), most common group of brain tumors children. <h3>MATERIALS METHODS:</h3> We analyzed 201 pLGG patients Children's Brain Tumor Network (CBTN), using principal component analysis K-Means clustering on 881 radiomic features, along...
Prostate-specific membrane antigen (PSMA) is a well-established target in prostate cancer therapy that has shown potential as theranostic across non-central nervous system (CNS) and CNS tumor types. We aimed to investigate the pan-tissue expression pattern of PSMA-encoding gene FOLH1 assess whether transcriptome profiling can inform diagnostic probes. assessed from Open Pediatric Cancer Project (OpenPedCan, n = 2132 specimens), Genome Atlas (TCGA, 10,411 Genotype Tissue Expression (GTEx,...
Abstract Background In 2019, the Open Pediatric Brain Tumor Atlas (OpenPBTA) was created as a global, collaborative open-science initiative to genomically characterize 1,074 pediatric brain tumors and 22 patient-derived cell lines. Here, we present an extension of OpenPBTA called Cancer (OpenPedCan) Project, harmonized open-source multi-omic dataset from 6,112 cancer patients with 7,096 tumor events across more than 100 histologies. Combined RNA-Seq Genotype-Tissue Expression (GTEx) The...
Pediatric brain cancer is the leading cause of disease-related mortality in children, and many aggressive tumors still lack effective treatment strategies. We characterized aberrant alternative splicing across pediatric tumors, identifying high-grade gliomas (HGGs) among most heterogeneous. Annotating these events with UniProt, we identified 11,940 splice 5,368 genes to potential protein function changes. discovered CDC-like kinase 1 (CLK1) aberrantly spliced include exon 4, resulting a gain...
Ovarian cancers can exhibit a prominent immune infiltrate, but clinical trials have not demonstrated substantive response rates to checkpoint blockade monotherapy. We aimed understand genomic features associated with immunogenicity in
Abstract BACKGROUND Children and young adults diagnosed with high-grade glioma (HGG) face extremely poor prognoses. Despite multiple clinical trials testing new treatments in this population, a survival advantage has yet to be achieved. Herein we assessed, single-arm, multi-center pilot trial, the feasibility of molecular profiling primary HGG tumor tissue create an individualized treatment plan up four FDA approved medications. METHODS Patients aged &lt;21 years newly diagnosed,...
Abstract In this study, we present a comprehensive radiogenomic analysis of pediatric low-grade gliomas (pLGGs), combining treatment-naïve multiparametric MRI and RNA sequencing. We identified three immunological clusters using XCell enrichment scores, highlighting an ‘immune-hot’ group correlating with poorer prognosis, suggesting potential benefits from immunotherapies. A radiomic signature predicting profiles showed balanced accuracies 81.5% 84.4% across discovery replication cohorts,...
Abstract BACKGROUND Pediatric medulloblastoma is an aggressive brain tumor and tailored treatment has the potential to lead better patient outcomes. The WHO 2021 classification of involves integrated diagnosis that incorporates genetically defined characteristics, including molecular subgroups (WNT-activated, SHH-activated TP53 wildtype, TP53-mutant, non-WNT/non-SHH). Clinically acquired radiology (MRI) imaging characteristics could provide a non-invasive, pre-treatment biomarker for such...
Abstract BACKGROUND PNOC027, a clinical trial conducted by the Pediatric Neuro-Oncology Consortium (PNOC), explores precision medicine strategy with up to four FDA-approved agents integrating real-time drug screening whole exome DNA and RNA sequencing guide personalized treatment approaches for children young adults relapsed medulloblastoma. METHODS Freshly isolated tumor cells from patients undergo high-throughput screening, evaluating responses 232 clinically available compounds over 72...
Summary Pediatric brain and spinal cancer are the leading disease-related cause of death in children, thus we urgently need curative therapeutic strategies for these tumors. To accelerate such discoveries, Children’s Brain Tumor Network Pacific Neuro-Oncology Consortium created a systematic process tumor biobanking, model generation, sequencing with immediate access to harmonized data. We leverage data create OpenPBTA, an open collaborative project which establishes over 40 scalable analysis...
Abstract Medulloblastoma is a cerebellar tumor for which relapses are associated with poor survival rates of less than 5%. Molecular heterogeneity and dose-limiting toxicities that occur standard care approaches, include surgical resection, craniospinal irradiation, chemotherapy, complicate the treatment both primary recurrent medulloblastoma due to adverse long-term sequela. While integration molecular analyses into histopathology pediatric medulloblastomas has changed way these diseases...