2025
In Vivo PET Imaging of Preynaptic Density Reveals Stress-Associated Synaptic Deficits Related to Behavioral and Molecular Alterations in Rats
Asch R, Hernandez Martin N, Garcia-Milian R, Fowles K, DiLeone R, Cai Z, Liston C, Esterlis I. In Vivo PET Imaging of Preynaptic Density Reveals Stress-Associated Synaptic Deficits Related to Behavioral and Molecular Alterations in Rats. Biological Psychiatry Cognitive Neuroscience And Neuroimaging 2025 PMID: 41038318, DOI: 10.1016/j.bpsc.2025.09.021.Peer-Reviewed Original ResearchNovel object recognitionPrefrontal cortexPositron emission tomographySucrose preferenceSynaptic densityChronic stressExposed to chronic unpredictable stressIn vivo PET imagingRodent models of chronic stressModel of chronic stressFemale Long-Evans ratsChronic unpredictable stressIn vivo positron emission tomographyStress-related pathologiesLong-Evans ratsRodent modelsRats relative to controlsIn vivo quantificationRelative to controlsUnpredictable stressBehavioral phenotypesSynaptic deficitsHippocampal proteinsSynaptic density changesSynaptic vesicle protein 2ADistinct metabolic and genetic alterations in tumors from early-onset versus late-onset colorectal cancer
Janak A, Jain A, Garcia-Milian R, Aladelokun O, Ma X, Paty P, Khan S, Johnson C. Distinct metabolic and genetic alterations in tumors from early-onset versus late-onset colorectal cancer. Free Radical Biology And Medicine 2025, 240: 773-782. PMID: 40865779, DOI: 10.1016/j.freeradbiomed.2025.08.052.Peer-Reviewed Original ResearchLate-onset colorectal cancerEO-CRCColorectal cancerTumor metabolomeMass spectrometry-based untargeted metabolomicsTumor tissuesCatecholamine metabolismGroup of CRC patientsMetabolite set enrichment analysisPatient-matched normal tissuesTumor-specific differencesEarly-onset colorectal cancerMetabolite of dopaminePD-L1Untargeted metabolomicsCRC patientsOxidative stress-related genesHomovanillic acidGenetic alterationsEarly-onsetTumorTherapeutic strategiesGene expression validationNormal tissuesEGFR SignalingThe Proteomic Landscape of Parkin-Deficient and Parkin-Overexpressing Rat Nucleus Accumbens: An Insight into the Role of Parkin in Methamphetamine Use Disorder
Sharma A, Atasi T, Collin F, Wang W, Lam T, Garcia-Milian R, Arroum T, Pham L, Hüttemann M, Moszczynska A. The Proteomic Landscape of Parkin-Deficient and Parkin-Overexpressing Rat Nucleus Accumbens: An Insight into the Role of Parkin in Methamphetamine Use Disorder. Biomolecules 2025, 15: 958. PMID: 40723830, PMCID: PMC12292523, DOI: 10.3390/biom15070958.Peer-Reviewed Original ResearchConceptsMETH use disorderMethamphetamine use disorderNucleus accumbensAddictive behaviorsUse disorderAdult Long-Evans male ratsLong-Evans male ratsProteomic landscapeRat nucleus accumbensMale ratsFDA-approved pharmacotherapiesActin cytoskeleton dynamicsYoung adult male ratsDrug targetsAdult male ratsAMPA receptor traffickingRat modelLabel-free proteomicsGABAergic neurotransmissionCytoskeleton dynamicsMethamphetamineUbiquitinated proteinsMitochondrial respirationAccumbensParkin deficiencyProliferative arrest induces neuronal differentiation and innate immune responses in normal and Creutzfeldt-Jakob Disease agent (CJ) infected rat septal neurons
Pagano N, Perez G, Garcia-Milian R, Manuelidis L. Proliferative arrest induces neuronal differentiation and innate immune responses in normal and Creutzfeldt-Jakob Disease agent (CJ) infected rat septal neurons. PLOS ONE 2025, 20: e0323825. PMID: 40434970, PMCID: PMC12118874, DOI: 10.1371/journal.pone.0323825.Peer-Reviewed Original ResearchConceptsSeptal neuronsInnate immune responseDifferential transcriptionCreutzfeldt-Jakob disease agentCJ infectionImmune responseBind misfolded proteinsInnate immune genesIntestinal myeloid cellsRat septal neuronsArrests normal cellsDisease agentsInnate immune transcriptsCreutzfeldt-JakobModel of latent infectionAnti-viral responseCDNA libraryUnique transcriptsPeripheral human bloodLate-onset diseaseUninfected neuronsUpregulated interferonImmune genesMyeloid cellsTranscription270. Sex-Differences in Molecular and Synaptic Mechanisms Contributing to Stress-Related pathology: Insight from a Synaptic Density Pet and Proteomic Study in Rats
Asch R, Garcia-Milian R, Hernandez-Martin N, Cai Z, Esterlis I. 270. Sex-Differences in Molecular and Synaptic Mechanisms Contributing to Stress-Related pathology: Insight from a Synaptic Density Pet and Proteomic Study in Rats. Biological Psychiatry 2025, 97: s207. DOI: 10.1016/j.biopsych.2025.02.508.Peer-Reviewed Original ResearchTranscriptomic landscape of cumulus cells from patients <38 years old with a history of poor ovarian response (POR) treated with platelet-rich plasma (PRP)
Roberts L, Herlihy N, Reig A, Titus S, Garcia-Milian R, Knight J, Yildirim R, Margolis C, Cakiroglu Y, Tiras B, Whitehead C, Werner M, Seli E. Transcriptomic landscape of cumulus cells from patients <38 years old with a history of poor ovarian response (POR) treated with platelet-rich plasma (PRP). Aging 2025, 17: 431-447. PMID: 39976580, PMCID: PMC11892918, DOI: 10.18632/aging.206202.Peer-Reviewed Original ResearchConceptsPlatelet-rich plasmaTreated with platelet-rich plasmaCumulus cellsPoor ovarian responseLive birthsGene expressionIntraovarian injection of autologous platelet-rich plasmaPatients treated with platelet-rich plasmaInjection of autologous platelet-rich plasmaHistory of poor ovarian responseAutologous platelet-rich plasmaPlatelet-rich plasma treatmentDiminished ovarian reserveCell-to-cell signalingRNA sequencing librariesCause of infertilityDifferential expression analysisFalse discovery rate thresholdIntraovarian injectionOvarian reserveFailed implantsSequencing librariesOvarian responseTranscriptomic landscapeRNA sequencing
2024
Hormone Receptor-Positive HER2-Negative/MammaPrint High-2 Breast Cancers Closely Resemble Triple-Negative Breast Cancers.
Rios-Hoyo A, Xiong K, Dai J, Yau C, Marczyk M, Garcia-Milian R, Wolf D, Huppert L, Nanda R, Hirst G, Cobain E, van 't Veer L, Esserman L, Pusztai L. Hormone Receptor-Positive HER2-Negative/MammaPrint High-2 Breast Cancers Closely Resemble Triple-Negative Breast Cancers. Clinical Cancer Research 2024, 31: 403-413. PMID: 39561272, PMCID: PMC11747811, DOI: 10.1158/1078-0432.ccr-24-1553.Peer-Reviewed Original ResearchPathological complete responseEvent-free survivalBreast cancerHER2 negative breast cancerHormone receptor-positive/HER2-negativePathologic complete response ratePrognostic risk categoriesTN breast cancerNegative breast cancerGene set analysisExpression of cell cycleGene expression dataLow-risk subgroupsHigh-risk groupMammaPrint assayNeoadjuvant trialsComplete responseER statusResidual cancerPrognostic groupsClinical featuresI-SPY2Prognostic assaysExpression dataTreatment strategiesProteomic Profile of Circulating Extracellular Vesicles in the Brain after Δ9-Tetrahydrocannabinol Inhalation
Lallai V, Lam T, Garcia-Milian R, Chen Y, Fowler J, Manca L, Piomelli D, Williams K, Nairn A, Fowler C. Proteomic Profile of Circulating Extracellular Vesicles in the Brain after Δ9-Tetrahydrocannabinol Inhalation. Biomolecules 2024, 14: 1143. PMID: 39334909, PMCID: PMC11430348, DOI: 10.3390/biom14091143.Peer-Reviewed Original ResearchConceptsImmediate early gene c-fosChronic THC exposureEarly gene c-fosCannabinoid 1 receptorGene c-fosSex-specific mannerTHC exposurePsychoactive componentExtracellular vesiclesCentral signaling mechanismDrug effectsTHCChoroid plexus epithelial cellsFemale ratsC-fosPlexus epithelial cellsBrainCannabisRelease of EVsRegulate intercellular communicationCerebrospinal fluidEpithelial cellsIntercellular signaling mediatorsEV signalingIntercellular communicationThe human CD47 checkpoint is targeted by an immunosuppressive Aedes aegypti salivary factor to enhance arboviral skin infectivity
Marin-Lopez A, Huck J, Esterly A, Azcutia V, Rosen C, Garcia-Milian R, Sefik E, Vidal-Pedrola G, Raduwan H, Chen T, Arora G, Halene S, Shaw A, Palm N, Flavell R, Parkos C, Thangamani S, Ring A, Fikrig E. The human CD47 checkpoint is targeted by an immunosuppressive Aedes aegypti salivary factor to enhance arboviral skin infectivity. Science Immunology 2024, 9: eadk9872-eadk9872. PMID: 39121194, PMCID: PMC11924945, DOI: 10.1126/sciimmunol.adk9872.Peer-Reviewed Original ResearchConceptsSuppress antiviral responsesArthropod proteinsPathogen replicationAntiviral responseProtein AVertebrate hostsMosquito salivary proteinsUp-regulatedBlood feedingHuman macrophagesPleomorphic effectsSkin infectionsZika virus disseminationInhibit proinflammatory responsesSalivary proteinsProteinNatural ligandWhite blood cellsHuman skin explantsProinflammatory responseMosquito salivaVirus disseminationHuman CD47Salivary factorsArbovirus infectionAsparagine synthetase and G‐protein coupled estrogen receptor are critical responders to nutrient supply in KRAS mutant colorectal cancer
Lu L, Zhang Q, Aladelokun O, Berardi D, Shen X, Marin A, Garcia‐Milian R, Roper J, Khan S, Johnson C. Asparagine synthetase and G‐protein coupled estrogen receptor are critical responders to nutrient supply in KRAS mutant colorectal cancer. International Journal Of Cancer 2024, 156: 52-68. PMID: 39039782, PMCID: PMC11537827, DOI: 10.1002/ijc.35104.Peer-Reviewed Original ResearchG protein-coupled estrogen receptor 1KRAS mutant colorectal cancerAsparagine synthetase expressionMutant colorectal cancerColorectal cancerAsparagine synthetaseG-protein coupled estrogen receptor 1 expressionG protein-coupled estrogen receptorWild-typeAssociated with poor overall survivalAdvanced stage tumorsKRAS wild-typeProtective effect of estradiolEffects of estradiolPoor overall survivalEstrogen receptor 1Expression of asparagine synthetasePresence of estradiolIncreased caspase-3 activityDepletion inhibited cell growthColon cancer cohortNutrient supplyAdvanced tumorsOverall survivalStage tumorsSpatial Transcriptomics Unravel the Mechanisms Underlying Epithelial Desquamation in Idiopathic Pulmonary Fibrosis
Radhamani Chandran R, Vijayaraj P, Garcia Milian R, King J, Castillo K, Hagan V, Choi W, Sen C, Rickabaugh T, Plosa E, Gomperts B. Spatial Transcriptomics Unravel the Mechanisms Underlying Epithelial Desquamation in Idiopathic Pulmonary Fibrosis. 2024, a4899-a4899. DOI: 10.1164/ajrccm-conference.2024.209.1_meetingabstracts.a4899.Peer-Reviewed Original ResearchInterleukin-7-based identification of liver lymphatic endothelial cells reveals their unique structural features
Yang Y, Jeong J, Su T, Lai S, Zhang P, Garcia-Milian R, Graham M, Liu X, McConnell M, Utsumi T, Pereira J, Iwakiri Y. Interleukin-7-based identification of liver lymphatic endothelial cells reveals their unique structural features. JHEP Reports 2024, 6: 101069. PMID: 38966234, PMCID: PMC11222939, DOI: 10.1016/j.jhepr.2024.101069.Peer-Reviewed Original ResearchCell surface structuresLymphatic endothelial cellsPublished single-cell RNA-sequencingRNA-seq analysisScRNA-seq analysisSingle-cell RNA sequencingLymphatic systemEndothelial cellsInterleukin-7RNA-seqScRNA-seqExpressed genesRNA sequencingTranscriptomic changesLow abundanceI/R liver injuryGenesIsolation protocolLiver cell typesCell typesIsolation methodLiver of miceHuman liver specimensHeterozygous miceMouse liver
2023
Librarians and Bioinformatics Communities Working Together to Advance Research and Instruction
Brandenburg M, Garcia-Milian R. Librarians and Bioinformatics Communities Working Together to Advance Research and Instruction. 2023, 1070-1089. DOI: 10.4018/979-8-3693-3026-5.ch045.Peer-Reviewed Original ResearchProteomic Profiling of Different Antiphospholipid Antibody-Positive Phenotypes: Results from Antiphospholipid Syndrome Alliance for Clinical Trials and International Networking (APS ACTION) Registry
Pine A, Butt A, Garcia-Milian R, Gu S, Restrepo V, Chock Y, Hwa J, Tormey C, Rinder H, Goshua G, Belmont H, Bertolaccini M, Branch D, Erhan D, Kello N, Knight J, Petri M, Willis R, Lee A, Sharda A. Proteomic Profiling of Different Antiphospholipid Antibody-Positive Phenotypes: Results from Antiphospholipid Syndrome Alliance for Clinical Trials and International Networking (APS ACTION) Registry. Blood 2023, 142: 2575. DOI: 10.1182/blood-2023-185232.Peer-Reviewed Original ResearchNeutrophil extracellular trapsAntiphospholipid syndromeHumoral immune responseImmune responseClinical phenotypePathophysiology of APSPathogenesis of APSSapporo classification criteriaAPL-positive patientsPathway enrichment analysisEffector cell differentiationAntiPhospholipid Syndrome AllianceDifferent clinical phenotypesProteomic profilingPlasma proteomic profilingPatient plasma samplesAPL antibodiesAPS pathogenesisAntiphospholipid antibodiesObstetric complicationsPositive aPLCytokine stormMedian ageMicrovascular disordersConcurrent diagnosisEXPLORING THE IMPACT OF INTRAOVARIAN PLATELET RICH PLASMA (PRP) INJECTION ON CUMULUS CELL RNA EXPRESSION
Roberts L, Herlihy N, Titus S, Garcia-Milian R, Margolis C, Gill P, Reig A, Genovese H, Willson S, Whitehead C, Werner M, Seli E. EXPLORING THE IMPACT OF INTRAOVARIAN PLATELET RICH PLASMA (PRP) INJECTION ON CUMULUS CELL RNA EXPRESSION. Fertility And Sterility 2023, 120: e284-e285. DOI: 10.1016/j.fertnstert.2023.08.831.Peer-Reviewed Original ResearchDigital spatial profiling of melanoma shows CD95 expression in immune cells is associated with resistance to immunotherapy
Martinez-Morilla S, Moutafi M, Fernandez A, Jessel S, Divakar P, Wong P, Garcia-Milian R, Schalper K, Kluger H, Rimm D. Digital spatial profiling of melanoma shows CD95 expression in immune cells is associated with resistance to immunotherapy. OncoImmunology 2023, 12: 2260618. PMID: 37781235, PMCID: PMC10540659, DOI: 10.1080/2162402x.2023.2260618.Peer-Reviewed Original ResearchConceptsDigital spatial profilingImmune checkpoint inhibitor therapyShorter progression-free survivalQuantitative immunofluorescenceCheckpoint inhibitor therapyProgression-free survivalMetastatic melanoma patientsPre-treatment specimensIndependent validation cohortMetastatic melanoma casesAdjuvant settingNanoString GeoMxMultivariable adjustmentAdverse eventsImmunotherapy cohortInhibitor therapyPD-L1Immune markersMelanoma patientsUnivariable analysisValidation cohortImmune cellsMelanoma casesMultiplex immunofluorescenceCD95 expressionMulti-omics profiling reveals cellular pathways and functions regulated by ALDH1B1 in colon cancer cells
Wang Y, Popovic Z, Charkoftaki G, Garcia-Milian R, Lam T, Thompson D, Chen Y, Vasiliou V. Multi-omics profiling reveals cellular pathways and functions regulated by ALDH1B1 in colon cancer cells. Chemico-Biological Interactions 2023, 384: 110714. PMID: 37716420, PMCID: PMC10807983, DOI: 10.1016/j.cbi.2023.110714.Peer-Reviewed Original ResearchColon cancer cellsCellular stress response pathwaysStress response pathwaysMulti-omics analysisCancer cellsSecond messenger signalingMulti-omics profilingNew molecular informationFunctional annotationCellular functionsResponse pathwaysKinase signalingCellular pathwaysColon adenocarcinoma cell lineHuman colon adenocarcinoma cell lineApoptosis signalingEnrichment analysisAldehyde dehydrogenase 1B1Molecular signaturesAdenocarcinoma cell lineMolecular informationSignalingNovel targetProtein expressionCell linesAutologous humanized PDX modeling for immuno-oncology recapitulates features of the human tumor microenvironment
Chiorazzi M, Martinek J, Krasnick B, Zheng Y, Robbins K, Qu R, Kaufmann G, Skidmore Z, Juric M, Henze L, Brösecke F, Adonyi A, Zhao J, Shan L, Sefik E, Mudd J, Bi Y, Goedegebuure S, Griffith M, Griffith O, Oyedeji A, Fertuzinhos S, Garcia-Milian R, Boffa D, Detterbeck F, Dhanasopon A, Blasberg J, Judson B, Gettinger S, Politi K, Kluger Y, Palucka K, Fields R, Flavell R. Autologous humanized PDX modeling for immuno-oncology recapitulates features of the human tumor microenvironment. Journal For ImmunoTherapy Of Cancer 2023, 11: e006921. PMID: 37487666, PMCID: PMC10373695, DOI: 10.1136/jitc-2023-006921.Peer-Reviewed Original ResearchConceptsHuman tumor microenvironmentTumor microenvironmentTumor-immune interactionsSolid tumorsAdaptive immune activationAdaptive immune populationsIndividual tumor microenvironmentsPatient's hematopoietic systemPatient-derived xenograft tissuesVascular endothelial growth factorBone marrow hematopoietic stemBone marrow aspiratePreclinical drug testingEndothelial growth factorHematopoietic systemAutologous tumorPDX modelingPDX miceImmune activationImmune populationsMarrow aspiratesAutologous systemIndividual patientsLittermate controlsPreclinical predictionsPartnering with health sciences libraries to address challenges in bioimaging data management and sharing
. Partnering with health sciences libraries to address challenges in bioimaging data management and sharing. Histochemistry And Cell Biology 2023, 160: 193-198. PMID: 37247072, DOI: 10.1007/s00418-023-02198-1.Peer-Reviewed Original ResearchPeripheral signature of altered synaptic integrity in young onset cannabis use disorder: A proteomic study of circulating extracellular vesicles
Ganesh S, Lam T, Garcia-Milian R, D'Souza D, Nairn A, Elgert K, Eitan E, Ranganathan M. Peripheral signature of altered synaptic integrity in young onset cannabis use disorder: A proteomic study of circulating extracellular vesicles. The World Journal Of Biological Psychiatry 2023, 24: 603-613. PMID: 36994633, PMCID: PMC10471733, DOI: 10.1080/15622975.2023.2197039.Peer-Reviewed Original ResearchConceptsNeuron-derived extracellular vesiclesLabel-free quantification mass spectrometryProteomic studiesCannabis use disorderExtracellular vesiclesMass spectrometry proteomic analysisDifferential proteomic profilesAdapter proteinProteomic analysisPost-synaptic densityPeripheral signatureMolecular basisProteomic profilesProteinMarkers of neuropathologyBrain tissue samplesSynaptic pathologyVesiclesSynaptic integrityImmunoaffinity methodUse disordersFunctional integrityImportant insightsNeuropathologyPilot study
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