ArticleCancer cell2024
Multi-scale signaling and tumor evolution in high-grade gliomas.
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Article in Cancer cell, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 55 papers.
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55citing papers in PubMed
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Who cites it
55 citing papers in PubMed.
- Advances in Single-Cell and Spatial Omics for Glioblastoma Precision Medicine.Current oncology reports · 2026Review
- NeuroMetBench: patient-aware evidence bounds for transcript-derived metabolic representations across cancer proteogenomic contexts.Functional & integrative genomics · 2026Article
- METTL3 Increases Temozolomide Resistance in MGMT-Negative Glioblastoma by Enhancing CBX5 mRNA Stability in an mCNS neuroscience & therapeutics · 2026Article
- FeBioactive materials · 2026Article
- Effective tumor kinetics inferred from single routine H&E biopsies enable counterfactual virtual radiotherapy trials.medRxiv : the preprint server for health sciences · 2026Article
- Epigenetic Silencing of RFX7 Defines a Transcriptional Axis Linking Lactate Metabolism to Immune Checkpoint Therapy in Glioblastoma.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Protein corona guided albumin-binding paclitaxel nanoparticles for treatment of intracranial tumors.Scientific reports · 2026Article
- Trimodal, uncertainty-guided whole-slide framework for genome-scale spatial expression and image-only virtual perturbation in cancer cohorts.Genome medicine · 2026Article
- Single-cell transcriptomics reveals MAFB-driven macrophage reprogramming and immune divergence in recurrent glioblastoma.BMC cancer · 2026Article
- Decoding glioblastoma evolution and heterogeneity through mechanistic modeling: implications for clinical translation.Journal of experimental & clinical cancer research : CR · 2026Review
- MET-mediated phosphorylation of YANK2 at Y282 inhibits NEDD4L-dependent SUMOylation and degradation, promoting chemoresistance in glioblastoma.Molecular biomedicine · 2026Article
- Hp1bp3 loss links chromatin reorganization to metabolic vulnerability in glioma.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- A BBB-permeable βScience advances · 2026Article
- Glioblastoma region-specific metabolic signatures reflect patient survival duration.Journal of neuro-oncology · 2026Article
- Targeting glutamine metabolism to modulate macrophage functions in the tumor microenvironment.Discover oncology · 2026Review
- Discovering proteo-transcriptomic networks via biologically informed heterogeneous graph learning.Nucleic acids research · 2026Article
- Global impact of germline structural variation on the cancer proteome.Nature communications · 2026Article
- Proteogenomics: decoding cancer in multiple dimensions.MedScience · 2026Review
- Review
- ASGR2 and CLEC12A as Prognostically Relevant C-Type Lectin Hubs in Glioblastoma.International journal of molecular sciences · 2026Article
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Authors and funding
76 authors.
Jingxian LiuDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Song CaoDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Kathleen J ImbachJosep Carreras Leukaemia Research Institute, Badalona, Spain; Universidad Autónoma de Barcelona, 08193 Bellaterra, Barcelona, Spain.
Marina A GritsenkoBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Tung-Shing M LihDepartment of Pathology, Johns Hopkins University School of Medicine, Baltimore, MD 21287, USA.
Jennifer E KyleBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Tomer M Yaron-BarirMeyer Cancer Center, Weill Cornell Medicine, New York, NY 10021, USA; Englander Institute for Precision Medicine, Institute for Computational Biomedicine, Weill Cornell Medicine, New York, NY 10021, USA; Columbia University Vagelos College of Physicians and Surgeons, New York, NY 10032, USA.
Zev A BinderDepartment of Neurosurgery, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Yize LiDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Ilya StrunilinDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Yi-Ting WangBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Chia-Feng TsaiBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Weiping MaDepartment of Genetics and Genomic Sciences, Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Lijun ChenDepartment of Pathology, Johns Hopkins University School of Medicine, Baltimore, MD 21287, USA.
Natalie M ClarkThe Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Andrew ShinkleDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Nataly Naser Al DeenDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Wagma CaravanDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Andrew HoustonDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Faria Anjum SiminDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Matthew A WyczalkowskiDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Liang-Bo WangDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Erik StorrsDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Siqi ChenDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Ritvik IllindalaDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; Siteman Cancer Center, Washington University in St. Louis, St. Louis, MO 63130, USA; Department of Neurology, Washington University in St. Louis, St. Louis, MO 63130, USA.
Yuping D LiDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; Siteman Cancer Center, Washington University in St. Louis, St. Louis, MO 63130, USA; Department of Neurology, Washington University in St. Louis, St. Louis, MO 63130, USA.
Reyka G JayasingheDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Dmitry RykunovDepartment of Genetics and Genomic Sciences, Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Sandra L CottinghamDepartment of Pathology, Spectrum Health and Helen DeVos Children's Hospital, Grand Rapids, MI, USA.
Rosalie K ChuEnvironmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Karl K WeitzBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Ronald J MooreBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Tyler SagendorfBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Vladislav A PetyukBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Michael NestorBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Lisa M BramerBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Kelly G StrattonBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Athena A SchepmoesBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Sneha P CouvillionBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Josie EderBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Young-Mo KimBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Yuqian GaoBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Thomas L FillmoreDepartment of Pathology, Spectrum Health and Helen DeVos Children's Hospital, Grand Rapids, MI, USA.
Rui ZhaoBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Matthew E MonroeBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Austin N Southard-SmithDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Yang E LiDepartment of Genetics, Washington University School of Medicine, St. Louis, MO 63110, USA; Department of Neurosurgery, Washington University School of Medicine, St. Louis, MO 63110, USA.
Rita Jui-Hsien LuDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA.
Jared L JohnsonMeyer Cancer Center, Weill Cornell Medicine, New York, NY 10021, USA.
Maciej WiznerowiczInternational Institute for Molecular Oncology, Poznań, Poland; Poznan University of Medical Sciences, Poznań, Poland.
Galen HostetterVan Andel Research Institute, Grand Rapids, MI, USA.
Chelsea J NewtonVan Andel Research Institute, Grand Rapids, MI, USA.
Karen A KetchumICF, 530 Gaither Road Suite 500 Rockville, MD 20850, USA.
Ratna R ThanguduICF, 530 Gaither Road Suite 500 Rockville, MD 20850, USA.
Jill S Barnholtz-SloanCenter for Biomedical Informatics and Information Technology & Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD 20850, USA.
Pei WangDepartment of Genetics and Genomic Sciences, Icahn Institute of Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
David FenyöInstitute for Systems Genetics, NYU Grossman School of Medicine, New York, NY 10016, USA; Department of Biochemistry and Molecular Pharmacology, NYU Grossman School of Medicine, New York, NY 10016, USA.
Eunkyung AnOffice of Cancer Clinical Proteomics Research, National Cancer Institute, Rockville, MD 20850, USA.
Mathangi ThiagarajanFrederick National Laboratory for Cancer Research, Frederick MD 21701, USA.
Ana I RoblesOffice of Cancer Clinical Proteomics Research, National Cancer Institute, Rockville, MD 20850, USA.
D R ManiThe Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.
Richard D SmithBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA.
Eduard Porta-PardoJosep Carreras Leukaemia Research Institute, Badalona, Spain.
Lewis C CantleyMeyer Cancer Center, Weill Cornell Medicine, New York, NY 10021, USA; Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA; Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA 02215, USA.
Antonio IavaroneDepartment of Neurological Surgery and Department of Biochemistry, University of Miami Miller School of Medicine, Miami, FL 33136, USA; Sylvester Comprehensive Cancer Center, University of Miami Miller School of Medicine, Miami, FL 33136, USA.
Feng ChenDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; Siteman Cancer Center, Washington University in St. Louis, St. Louis, MO 63130, USA.
Mehdi MesriOffice of Cancer Clinical Proteomics Research, National Cancer Institute, Rockville, MD 20850, USA.
MacLean P NasrallahDepartment of Pathology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Hui ZhangDepartment of Pathology, Johns Hopkins University School of Medicine, Baltimore, MD 21287, USA; Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, MD 21287, USA; Department of Urology, Johns Hopkins University School of Medicine, Baltimore, MD 21287, USA.
Adam C ResnickCenter for Data Driven Discovery in Biomedicine, The Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA; Division of Neurosurgery, The Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA.
Milan G ChhedaDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; Siteman Cancer Center, Washington University in St. Louis, St. Louis, MO 63130, USA; Department of Neurology, Washington University in St. Louis, St. Louis, MO 63130, USA. Electronic address: mchheda@wustl.edu.
Karin D RodlandDepartment of Cell, Developmental, and Cancer Biology, Oregon Health & Science University, Portland, OR 97221, USA. Electronic address: rodland@ohsu.edu.
Tao LiuBiological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, USA. Electronic address: tao.liu@pnnl.gov.
Li DingDepartment of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA; Siteman Cancer Center, Washington University in St. Louis, St. Louis, MO 63130, USA; Department of Genetics, Washington University School of Medicine, St. Louis, MO 63110, USA. Electronic address: lding@wustl.edu.
Philadelphia Coalition for a Cure
Clinical Proteomic Tumor Analysis Consortium
Funding
Role of Phosphoinositides and Protein Kinases in the control of Cancer MetabolismR35CA197588 · NCI · WEILL MEDICAL COLL OF CORNELL UNIV · PI LEWIS C. CANTLEY · 2016 to 2026
$10.2MProteogenomic Studies aimed at understanding ovarian tumor responses to agents targeting the DNA damage response and translating this knowledge into clinical benefitU01CA214114 · NCI · FRED HUTCHINSON CANCER RESEARCH CENTER · PI BIRRER, MICHAEL, PAULOVICH, AMANDA G · 2017 to 2021
$8.4MResource for Biocomputing Visualization and InformaticsP41GM103311 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2012 to 2017
$8.2MMICROSCALED PROTEOGENOMICS FOR CANCER CLINICAL TRIALSU01CA214125 · NCI · BAYLOR COLLEGE OF MEDICINE · PI ANURAG, MEENAKSHI, CARR, STEVEN A · 2017 to 2021
$7.0MProteogenomic Translational Research Center for Clinical ProteomicU01CA214116 · NCI · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI DRUKER, BRIAN J, RODLAND, KARIN D · 2017 to 2021
$6.8MCenter for Advanced Multi-Omic Characterization of CancerU24CA271012 · NCI · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI Tao Liu · 2022 to 2026
$6.6MProteogenomic Characterization of Tumor Tissues and Preclinical Models with High PrecisionU24CA271079 · NCI · JOHNS HOPKINS UNIVERSITY · PI DANIEL Wanyui CHAN, Hui Zhang · 2022 to 2026
$6.6MCenter of Excellence for High Throughput Proteogenomic CharacterizationU24CA210986 · NCI · BROAD INSTITUTE, INC. · PI CARR, STEVEN A, GILLETTE, MICHAEL A · 2016 to 2020
$6.4MThe Comprehensive Proteome Characterization Center at Johns Hopkins: High Precision Discovery and Confirmation of Genoproteomic TargetsU24CA210985 · NCI · JOHNS HOPKINS UNIVERSITY · PI CHAN, DANIEL WANYUI, ZHANG, HUI · 2016 to 2020
$5.3MPNNL Proteome Characterization CenterU24CA210955 · NCI · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI LIU, TAO, SMITH, RICHARD D · 2016 to 2020
$5.3MOncogenic mechanisms, molecular stratification and therapeutic targets of brain tumorsR35CA253183 · NCI · UNIVERSITY OF MIAMI SCHOOL OF MEDICINE · PI Antonio Iavarone · 2021 to 2026
$5.2MProteogenomic translator for cancer biomarker discovery towards precision medicineU24CA271114 · NCI · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI Avi Ma'ayan, Pei Wang · 2022 to 2026
$5.0MNCI NIH HHS R35 CA197588NCI NIH HHS R35 CA253183NCI NIH HHS U01 CA214114NCI NIH HHS U01 CA214116NCI NIH HHS U01 CA214125NCI NIH HHS U24 CA210954NCI NIH HHS U24 CA210955NCI NIH HHS U24 CA210967NCI NIH HHS U24 CA210972NCI NIH HHS U24 CA210979NCI NIH HHS U24 CA210985NCI NIH HHS U24 CA210986NCI NIH HHS U24 CA210993NCI NIH HHS U24 CA271012NCI NIH HHS U24 CA271079NCI NIH HHS U24 CA271114NHGRI NIH HHS R01 HG009711NIGMS NIH HHS P41 GM103311NINDS NIH HHS R01 NS107833NINDS NIH HHS R01 NS117149
Abstract
Although genomic anomalies in glioblastoma (GBM) have been well studied for over a decade, its 5-year survival rate remains lower than 5%. We seek to expand the molecular landscape of high-grade glioma, composed of IDH-wildtype GBM and IDH-mutant grade 4 astrocytoma, by integrating proteomic, metabolomic, lipidomic, and post-translational modifications (PTMs) with genomic and transcriptomic measurements to uncover multi-scale regulatory interactions governing tumor development and evolution. Applying 14 proteogenomic and metabolomic platforms to 228 tumors (212 GBM and 16 grade 4 IDH-mutant astrocytoma), including 28 at recurrence, plus 18 normal brain samples and 14 brain metastases as comparators, reveals heterogeneous upstream alterations converging on common downstream events at the proteomic and metabolomic levels and changes in protein-protein interactions and glycosylation site occupancy at recurrence. Recurrent genetic alterations and phosphorylation events on PTPN11 map to important regulatory domains in three dimensions, suggesting a central role for PTPN11 signaling across high-grade gliomas.
Indexed as
Brain NeoplasmsGliomaProtein Tyrosine Phosphatase, Non-Receptor Type 11Signal TransductionGene Expression Regulation, NeoplasticGlioblastomaHumansIsocitrate DehydrogenaseMutationNeoplasm GradingPhosphorylationProtein Processing, Post-TranslationalProteomicsIsocitrate DehydrogenaseProtein Tyrosine Phosphatase, Non-Receptor Type 11PTPN11 protein, humanCPTACglioblastomaglycoproteomicslipidomemetabolomeproteomicssingle nuclei ATAC-seqsingle nuclei RNA-seqtumor recurrence
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