2024
Genetic disruption of the bacterial raiA motif noncoding RNA causes defects in sporulation and aggregation
Soares L, King C, Fernando C, Roth A, Breaker R. Genetic disruption of the bacterial raiA motif noncoding RNA causes defects in sporulation and aggregation. Proceedings Of The National Academy Of Sciences Of The United States Of America 2024, 121: e2318008121. PMID: 38306478, PMCID: PMC10861870, DOI: 10.1073/pnas.2318008121.Peer-Reviewed Original ResearchConceptsMotif RNAsGenetic disruptionSecondary structure modelKnock-out strainTrans-acting factorsNoncoding RNAsCell differentiation processAbundant RNATransfer RNANcRNA classesRibosomal RNASpore formationMotif genesCellular processesBacterial speciesCellular functionsBioinformatics analysisExpression analysisMotifRNAGenesBiochemical mechanismsNcRNAsDifferentiation processStructural probes
2020
The dynamics of morphogenesis in stem cell-based embryology: Novel insights for symmetry breaking
Sozen B, Cornwall-Scoones J, Zernicka-Goetz M. The dynamics of morphogenesis in stem cell-based embryology: Novel insights for symmetry breaking. Developmental Biology 2020, 474: 82-90. PMID: 33333067, PMCID: PMC8259461, DOI: 10.1016/j.ydbio.2020.12.005.Peer-Reviewed Original ResearchConceptsSignaling gradientsMorphogen signaling gradientsAnteroposterior axis specificationMammalian embryosBody planAxis specificationSymmetry breakingModel of embryogenesisEmbryonic symmetryEmbryonic cellsPatterns in vivoMolecular processesAdult organismBiochemical mechanismsDynamics of morphogenesisEmbryogenesisIn vitro modelEmbryosModel systemIn vitroCritical processCellsMorphogenMorphogenesisStem cells
2019
N(6)-Methyladenine in eukaryotes
Alderman MH, Xiao AZ. N(6)-Methyladenine in eukaryotes. Cellular And Molecular Life Sciences 2019, 76: 2957-2966. PMID: 31143960, PMCID: PMC6857450, DOI: 10.1007/s00018-019-03146-w.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsHepatic metabolic adaptation in a murine model of glutathione deficiency
Chen Y, Golla S, Garcia-Milian R, Thompson DC, Gonzalez FJ, Vasiliou V. Hepatic metabolic adaptation in a murine model of glutathione deficiency. Chemico-Biological Interactions 2019, 303: 1-6. PMID: 30794799, PMCID: PMC6743730, DOI: 10.1016/j.cbi.2019.02.015.Peer-Reviewed Original ResearchConceptsCellular non-protein thiolsMetabolic adaptationGlutamate-cysteine ligase modifier subunitNon-protein thiolsHepatic metabolic adaptationCellular redoxGlobal profilingGSH homeostasisModifier subunitLiver developmentBiochemical mechanismsMetabolic homeostasisAmino acidsGclm null miceDefense mechanismsEnvironmental insultsOxidative damageFatty liver developmentNull miceSpectrum of changesNucleic acidsMetabolic signaturesPivotal roleHomeostasisGlutathione deficiency
2014
The Properties of Long Noncoding RNAs that Regulate Chromatin
Rutenberg-Schoenberg M, Sexton A, Simon M. The Properties of Long Noncoding RNAs that Regulate Chromatin. Annual Review Of Genomics And Human Genetics 2014, 17: 1-26. DOI: 10.1146/annurev-genom-090314-024939.Peer-Reviewed Original ResearchChromatin-based processesLong noncoding RNAMechanisms of lncRNAsChromatin biologyChromatin structureLncRNA functionsNuclear roleHuman lncRNAsPosttranscriptional regulationNoncoding RNAsRNA moleculesGene expressionFinal online publication dateBiochemical mechanismsBroader roleRNAUpstream roleLncRNAsOnline publication dateHuman physiologyChromatinGenomicsTranscriptionBiologyMechanism
2013
AMPK-Dependent Degradation of TXNIP upon Energy Stress Leads to Enhanced Glucose Uptake via GLUT1
Wu N, Zheng B, Shaywitz A, Dagon Y, Tower C, Bellinger G, Shen C, Wen J, Asara J, McGraw T, Kahn B, Cantley L. AMPK-Dependent Degradation of TXNIP upon Energy Stress Leads to Enhanced Glucose Uptake via GLUT1. Molecular Cell 2013, 49: 1167-1175. PMID: 23453806, PMCID: PMC3615143, DOI: 10.1016/j.molcel.2013.01.035.Peer-Reviewed Original ResearchConceptsThioredoxin-interacting proteinAMP-dependent protein kinaseGLUT1 messenger RNAMessenger RNAEnergy stressArrestin family proteinGlucose uptakeGlucose transporter GLUT1Negative feedback loopFamily proteinsProtein kinaseProtein productionEnhanced glucose uptakeGLUT1 functionBiochemical mechanismsLong-term adaptationTransporter GLUT1ADP ratioEnergy homeostasisGLUT1Rapid degradationProteinGlucose influxFeedback loopUptake
2012
External awareness and GABA—A multimodal imaging study combining fMRI and [18F]flumazenil‐PET
Wiebking C, Duncan N, Qin P, Hayes D, Lyttelton O, Gravel P, Verhaeghe J, Kostikov A, Schirrmacher R, Reader A, Bajbouj M, Northoff G. External awareness and GABA—A multimodal imaging study combining fMRI and [18F]flumazenil‐PET. Human Brain Mapping 2012, 35: 173-184. PMID: 22996793, PMCID: PMC6869063, DOI: 10.1002/hbm.22166.Peer-Reviewed Original ResearchConceptsNeuronal activity changesInhibitory neurotransmitter GABANegative BOLD responseFunctional magnetic resonance imaging paradigmCortical midline regionsSame healthy subjectsGABAA receptorsHealthy subjectsNeurotransmitter GABAPsychiatric disordersBiochemical mechanismsPET imagingExtrinsic systemMidline regionBOLD responseExternal awarenessNeuronal networksUnderlying neuronal networksImaging paradigmGABAActivity changesStimulus typeSame paradigmAwarenessPrecuneus
2011
The Regulation of Sulfur Metabolism in Mycobacterium tuberculosis
Hatzios SK, Bertozzi CR. The Regulation of Sulfur Metabolism in Mycobacterium tuberculosis. PLOS Pathogens 2011, 7: e1002036. PMID: 21811406, PMCID: PMC3141025, DOI: 10.1371/journal.ppat.1002036.Peer-Reviewed Original ResearchConceptsSulfate assimilation pathwayAssimilation pathwayDiverse environmental cuesMycobacterium tuberculosisBiosynthesis of moleculesHost immune cellsSmall molecule regulatorsSuccessful human pathogenSulfur metabolismRegulatory cuesMtb infectionGranuloma formationImmune cellsEnvironmental cuesRegulatory proteinsSulfur-containing metabolitesMolecule regulatorsAlveolar macrophagesTherapeutic interventionsMetabolism regulationBiochemical mechanismsIntracellular pathogensMetabolic adaptationHuman pathogensTuberculosis
2008
Recurrent Acute Pancreatitis in a Child with Primary Hyperparathyroidism
Phatak UP, Park AJ, Latif SU, Bultron G, Pashankar DS, Husain SZ. Recurrent Acute Pancreatitis in a Child with Primary Hyperparathyroidism. Journal Of Pediatric Endocrinology And Metabolism 2008, 21: 1191-1194. PMID: 19189694, DOI: 10.1515/jpem.2008.21.12.1191.Peer-Reviewed Original Research
2007
The Site-Specific Installation of Methyl-Lysine Analogs into Recombinant Histones
Simon MD, Chu F, Racki LR, de la Cruz CC, Burlingame AL, Panning B, Narlikar GJ, Shokat KM. The Site-Specific Installation of Methyl-Lysine Analogs into Recombinant Histones. Cell 2007, 128: 1003-1012. PMID: 17350582, PMCID: PMC2932701, DOI: 10.1016/j.cell.2006.12.041.Peer-Reviewed Original ResearchConceptsLysine methylationChromatin structureRecombinant histonesContext of chromatinHistone lysine methylationHistone lysine residuesSpecific lysine methylationNucleosome remodelingEffector proteinsPosttranslational modificationsDegree of methylationRecombinant proteinsHistonesLysine residuesMethyl lysineMethylationBiochemical mechanismsSite-specific installationProteinRapid generationNatural counterpartsChromatinPowerful toolAdaptorResidues
2006
Mitochondrial factors with dual roles in death and survival
Cheng WC, Berman SB, Ivanovska I, Jonas EA, Lee SJ, Chen Y, Kaczmarek LK, Pineda F, Hardwick JM. Mitochondrial factors with dual roles in death and survival. Oncogene 2006, 25: 4697-4705. PMID: 16892083, DOI: 10.1038/sj.onc.1209596.Peer-Reviewed Original ResearchConceptsBcl-2 family proteinsCell deathCell death regulatorsPro-death Bcl-2 family proteinNormal cellular functionMitochondrial fission proteinDeath regulatorsDeath stimuliCellular functionsFamily proteinsMitochondrial factorsFission proteinsCell survivalBiochemical mechanismsCaspasesDual roleProteinHealthy cellsCellsMammalsMitochondriaRegulatorSurvivalDeathStretch
2004
Visualizing a Circadian Clock Protein Crystal Structure of KaiC and Functional Insights
Pattanayek R, Wang J, Mori T, Xu Y, Johnson CH, Egli M. Visualizing a Circadian Clock Protein Crystal Structure of KaiC and Functional Insights. Molecular Cell 2004, 15: 375-388. PMID: 15304218, DOI: 10.1016/j.molcel.2004.07.013.Peer-Reviewed Original ResearchConceptsClock protein complexesAuto-phosphorylation siteGlobal gene expressionCircadian biological clockHomohexameric complexEvolutionary relationshipsProtein complexesCircadian clockworkATP bindingFunctional insightsCircadian proteinsKaiCProtein crystal structuresCentral poreGene expressionMolecular componentsBiochemical mechanismsBiological clockCrystal structureDouble donutComplex formationProteinCircadian rhythmicityMutationsCyanobacteria
2001
Bradykinin and nerve growth factor release the capsaicin receptor from PtdIns(4,5)P2-mediated inhibition
Chuang H, Prescott E, Kong H, Shields S, Jordt S, Basbaum A, Chao M, Julius D. Bradykinin and nerve growth factor release the capsaicin receptor from PtdIns(4,5)P2-mediated inhibition. Nature 2001, 411: 957-962. PMID: 11418861, DOI: 10.1038/35082088.Peer-Reviewed Original ResearchConceptsPlasma membrane phosphatidylinositolNerve growth factorTyrosine kinase receptorsActivation of PLCGrowth factorTRP channel familyMembrane phosphatidylinositolChannel familyKinase receptorsBiochemical mechanismsMolecular levelBiochemical studiesIon channelsCellular levelChannel activityHeat-activated ion channelExpression of VR1Sensory nerve endingsChemical stimuliSense of painSensory neuronsEndogenous factorsPrimary afferentsNerve endingsCapsaicin receptor
1989
In Vivo NMR Spectroscopy Studies of Cerebral Metabolism in Rats after Portal-Caval Shunting.
Fitzpatrick S, Behar K, Shulman R. In Vivo NMR Spectroscopy Studies of Cerebral Metabolism in Rats after Portal-Caval Shunting. Experimental Biology And Medicine 1989, 177-187. DOI: 10.1007/978-1-4612-4506-3_12.ChaptersPortal-caval shuntingInsufficient liver functionCerebral metabolismHepatic encephalopathyLiver functionVivo NMR spectroscopy studiesNeurological impairmentClinical studiesClinical conditionsSystemic circulationAnimal modeBrain tissueBloodBiochemical mechanismsEncephalopathyPathogenesisShuntingRatsShuntLiverImpairment
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