Featured Publications
The telomere maintenance mechanism spectrum and its dynamics in gliomas
Kim S, Chowdhury T, Yu H, Kahng J, Lee C, Choi S, Kim K, Kang H, Lee J, Lee S, Won J, Kim K, Kim M, Lee J, Kim J, Kim Y, Kim T, Choi S, Phi J, Shin Y, Ku J, Lee S, Yun H, Lee H, Kim D, Kim K, Hur J, Park S, Kim S, Park C. The telomere maintenance mechanism spectrum and its dynamics in gliomas. Genome Medicine 2022, 14: 88. PMID: 35953846, PMCID: PMC9367055, DOI: 10.1186/s13073-022-01095-x.Peer-Reviewed Original ResearchConceptsTERT promoter mutationsTelomere maintenance mechanismTelomerase activityGlioma samplesTERT expressionPromoter mutationsCancer management strategiesSlow growth potentialCancer cell immortalityC-circle assayGlioma patientsSeparate cohortNegative groupGlioma progressionNanoString analysisTumor tissueTelomerase enzyme activityGliomasTumor cellsConclusionsThis studyALTATRX mutationsTelomerase activationATRX lossConsiderable proportionSubcellular progression of mesenchymal transition identified by two discrete synchronous cell lines derived from the same glioblastoma
Kim S, Park S, Chowdhury T, Hong J, Ahn J, Jeong T, Yu H, Shin Y, Ku J, Park J, Hur J, Lee H, Kim K, Park C. Subcellular progression of mesenchymal transition identified by two discrete synchronous cell lines derived from the same glioblastoma. Cellular And Molecular Life Sciences 2022, 79: 181. PMID: 35278143, PMCID: PMC8918182, DOI: 10.1007/s00018-022-04188-3.Peer-Reviewed Original ResearchConceptsMesenchymal transitionCell linesAvailable single-cell RNA-seq dataMesenchymal transition (EMT) processCancer cell linesSame tissue samplesTherapeutic implicationsTumor samplesRecurrent samplesDriver mutationsGlioblastomaTissue samplesDistinct cancer cell linesGBM samplesIntratumoral heterogeneityTranscriptomic characteristicsGenomic analysis of synchronous intracranial meningiomas with different histological grades
Chowdhury T, Yoo Y, Seo Y, Dho Y, Kim S, Choi A, Choi M, Park S, Park C, Lee S, Lee J. Genomic analysis of synchronous intracranial meningiomas with different histological grades. Journal Of Neuro-Oncology 2018, 138: 41-48. PMID: 29423538, DOI: 10.1007/s11060-018-2772-1.Peer-Reviewed Original ResearchConceptsDifferent histological gradesWhole-exome sequencingHistological gradeDistinct gene expression profilesRNA-seq analysisRNA sequencing analysisSynchronous meningiomaGene expression profilesYear old female patientGenomic analysisCommon primary tumorExpression profilesGenomic eventsGenomic evaluationMechanisms of progressionSubsequent mutationsHigh gradeCentral nervous system
2024
Central neurocytoma exhibits radial glial cell signatures with FGFR3 hypomethylation and overexpression
Lee Y, Chowdhury T, Kim S, Yu H, Kim K, Kang H, Kim M, Kim J, Kim Y, Ji S, Hwang K, Han J, Hwang J, Yoo S, Lee K, Choe G, Won J, Park S, Lee Y, Shin J, Park C, Kim C, Kim J. Central neurocytoma exhibits radial glial cell signatures with FGFR3 hypomethylation and overexpression. Experimental & Molecular Medicine 2024, 56: 975-986. PMID: 38609519, PMCID: PMC11059271, DOI: 10.1038/s12276-024-01204-3.Peer-Reviewed Original ResearchConceptsWhole-exome sequencingNeuronal development pathwaysDrivers of tumorigenesisGlial cell differentiationMethylation sequencingGenomic eventsPI3K-Akt activationDownstream eventsGene markersMultiomics approachCell differentiationRadial glial cellsHypomethylationOverexpressionSequenceTumorigenesisFGFR3Cell signaturesGlial cellsPotential roleCellsTumor cellsCentral nervous systemMultiomicsOntogeny
2023
Patient-derived glioblastoma cell lines with conserved genome profiles of the original tissue
Kim S, Cho Y, Shin Y, Yu H, Chowdhury T, Kim S, Yi K, Choi C, Cha S, Park C, Ku J. Patient-derived glioblastoma cell lines with conserved genome profiles of the original tissue. Scientific Data 2023, 10: 448. PMID: 37438387, PMCID: PMC10338444, DOI: 10.1038/s41597-023-02365-y.Peer-Reviewed Original ResearchConceptsCell linesPatient-derived glioblastoma cell linesPatient-derived cell linesWhole exome sequencing datasetsExome sequencing datasetsGBM cell linesGlioblastoma cell linesSequence dataGenomic featuresLethal intracranial tumorSequencing technologiesSequencing datasetsMolecular markersWES datasetsGenome profilesMutational signaturesDruggable targetsNumber alterationsBiological credibilityGenomic profilesBiological platformMolecular characteristicsOriginal tissueTumor tissueGlioblastoma
2022
Pyridine-NBD: A homocysteine-selective fluorescent probe for glioblastoma (GBM) diagnosis based on a blood test
Kim Y, An J, Kim J, Chowdhury T, Yu H, Kim K, Kang H, Park C, Joung J, Park S, Kim D. Pyridine-NBD: A homocysteine-selective fluorescent probe for glioblastoma (GBM) diagnosis based on a blood test. Analytica Chimica Acta 2022, 1202: 339678. PMID: 35341522, DOI: 10.1016/j.aca.2022.339678.Peer-Reviewed Original ResearchGenome-wide perturbations of Alu expression and Alu-associated post-transcriptional regulations distinguish oligodendroglioma from other gliomas
Hwang T, Kim S, Chowdhury T, Yu H, Kim K, Kang H, Won J, Park S, Shin J, Park C. Genome-wide perturbations of Alu expression and Alu-associated post-transcriptional regulations distinguish oligodendroglioma from other gliomas. Communications Biology 2022, 5: 62. PMID: 35042936, PMCID: PMC8766575, DOI: 10.1038/s42003-022-03011-w.Peer-Reviewed Original ResearchConceptsCircular RNA levelsI editingGenome-wide perturbationsPost-transcriptional processesPost-transcriptional regulationRNA expressionRNA levelsAlu expressionHuman genomeRNA-seqRegulatory elementsRepeat elementsGenetic elementsAlu subfamiliesBiological processesGrade 2 oligodendrogliomaAluExpressionGliomagenesisEditingUnique patternTranscriptomeGenomeSubfamiliesNormal tissuesSpatial immune heterogeneity of hypoxia-induced exhausted features in high-grade glioma
Kim A, Choi S, Park J, Kwon M, Chowdhury T, Yu H, Kim S, Kang H, Kim K, Park S, Park C, Shin E. Spatial immune heterogeneity of hypoxia-induced exhausted features in high-grade glioma. OncoImmunology 2022, 11: 2026019. PMID: 35036078, PMCID: PMC8757477, DOI: 10.1080/2162402x.2022.2026019.Peer-Reviewed Original ResearchConceptsHigh-grade gliomasTumor immune microenvironmentTumor-associated macrophagesM2 tumor-associated macrophagesT cellsExhausted CD8Immune cellsImmunosuppressive cellsCTLA-4Hypoxic conditionsImmunosuppressive tumor immune microenvironmentProgression-free survivalRegulatory T cellsSurvival of patientsImmunosuppressive profilePD-1Patient survivalImmune microenvironmentImmune heterogeneityHypoxia signatureCD8Different biological featuresPatientsFlow cytometrySurvival
2021
A Deep Dive: SIWV Tetra-Peptide Enhancing the Penetration of Nanotherapeutics into the Glioblastoma
Kang R, Park J, Kim J, Chowdhury T, Oh J, Kim J, Shin J, Kim M, Park C, Lee S, Lee J, Kim D. A Deep Dive: SIWV Tetra-Peptide Enhancing the Penetration of Nanotherapeutics into the Glioblastoma. ACS Biomaterials Science & Engineering 2021, 8: 4163-4174. PMID: 34196517, DOI: 10.1021/acsbiomaterials.1c00653.Peer-Reviewed Original ResearchConceptsDrug delivery systemsNanoparticle-based drug delivery systemsPolyethylene glycolHigher anticancer efficacyPorous silicon nanoparticlesDevelopment of nanotherapeuticsGlioblastoma multiformeSilicon nanoparticlesTetra peptideIRGD peptideTargeting abilityDelivery systemAnticancer efficacyNanoparticlesTherapeutic formulationsGreat promiseAggressive malignant tumorSite targetingNanotherapeuticsCell spheroidsPenetration abilityStructure specificityMalignant tumorsPenetration depthXenograft miceAbsolute quantification of tumor-infiltrating immune cells in high-grade glioma identifies prognostic and radiomics values
Kim A, Choi K, Kim M, Kim K, Kang H, Kim S, Chowdhury T, Yu H, Lee C, Lee J, Lee S, Won J, Kim J, Kim Y, Kim T, Park S, Choi S, Shin E, Park C. Absolute quantification of tumor-infiltrating immune cells in high-grade glioma identifies prognostic and radiomics values. Cancer Immunology, Immunotherapy 2021, 70: 1995-2008. PMID: 33416947, PMCID: PMC10991432, DOI: 10.1007/s00262-020-02836-w.Peer-Reviewed Original ResearchConceptsTumor-infiltrating immune cellsHigh-grade gliomasImmune cellsTumor-associated macrophagesImmune microenvironmentRadiomics signatureClinical prognostic relevanceImmune cell numbersImmune cell subpopulationsImmune microenvironment characteristicsTumor immune microenvironmentCore tissueApparent diffusion coefficient (ADC) mapsDiffusion coefficient mapsOverall survivalPrognostic impactPatient groupPrognostic relevanceClinical prognosisImmune characteristicsImmune phenotypeMedian numberM2 TAMsTumor tissueMethodsThe number
2020
Inhibition of MUC1 exerts cell-cycle arrest and telomerase suppression in glioblastoma cells
Kim S, Seo Y, Chowdhury T, Yu H, Lee C, Kim K, Kang H, Kim H, Park S, Kim K, Park C. Inhibition of MUC1 exerts cell-cycle arrest and telomerase suppression in glioblastoma cells. Scientific Reports 2020, 10: 18238. PMID: 33106534, PMCID: PMC7589558, DOI: 10.1038/s41598-020-75457-z.Peer-Reviewed Original ResearchConceptsRole of MUC1Epithelial-mesenchymal transitionMucin 1Cell cycle arrestMUC1 knockdownNormal brain tissueExpression levelsGrowth factor betaTERT expression levelsGBM cell linesOverall survivalTherapeutic targetOncological processHuman gliomasBrain tissueFactor betaMesenchymal transitionPhosphorylation of RB1Diverse cancersGlioblastomaTelomere maintenance mechanismAnticancer mechanismCell proliferationCycle arrestGlioblastoma cells
2017
Glutaminase 2 expression is associated with regional heterogeneity of 5-aminolevulinic acid fluorescence in glioblastoma
Kim S, Kim J, Kim Y, Hwang T, Kim S, Xu W, Shin J, Kim J, Choi H, Kim H, Cho H, Choi A, Chowdhury T, Seo Y, Dho Y, Kim J, Kim D, Park S, Kim H, Choi S, Park S, Lee S, Park C. Glutaminase 2 expression is associated with regional heterogeneity of 5-aminolevulinic acid fluorescence in glioblastoma. Scientific Reports 2017, 7: 12221. PMID: 28939850, PMCID: PMC5610329, DOI: 10.1038/s41598-017-12557-3.Peer-Reviewed Original ResearchConceptsGlutaminase 2Subsequent metabolite profilingInsufficient NADPHKey genesRNA sequencingExpression profilingGene expressionFunctional analysisGenesExpression levelsMetabolite profilingGBM tissuesFluorescence heterogeneityMetabolic mechanismsNADPH production capacityFluorescence intensityAcid fluorescenceProfilingExpressionGlioblastoma treatmentProtoporphyrin IXFluorescenceIntratumoral heterogeneityFluorescence-guided surgeryTissue