2024
Metabolic complementation between cells drives the evolution of tissues and organs
Pavlicev M, DiFrisco J, Love A, Wagner G. Metabolic complementation between cells drives the evolution of tissues and organs. Biology Letters 2024, 20: 20240490. PMID: 39561800, PMCID: PMC11583983, DOI: 10.1098/rsbl.2024.0490.Peer-Reviewed Original ResearchConceptsMetabolic complementationEvolutionary transitionsCell typesSpecialized cell typesConstituent cell typesMetabolic constraintsMetabolic burdenCellular metabolismEvolution of tissuesSpecialized cellsSpecialized tissuesLevels of organizationCellsComplementOrganizationTissueNervous systemTypeMetabolismReading the palimpsest of cell interactions: What questions may we ask of the data?
Pavlicev M, Wagner G. Reading the palimpsest of cell interactions: What questions may we ask of the data? IScience 2024, 27: 109670. PMID: 38665209, PMCID: PMC11043885, DOI: 10.1016/j.isci.2024.109670.Peer-Reviewed Original ResearchCompartmentalization of cellular processesStructure of interaction networksCell interactionsMulticellular organismsIntegrity of cellsCellular processesInteraction networkLevels of structural organizationBiological functionsBiological interpretationCell communicationInteraction dataStructural organizationWealth of dataCellsCoordination of functionsOrganizationHigher levels of structural organizationCompartmentalizationInteraction
2023
Normalizing need not be the norm: count-based math for analyzing single-cell data
Church S, Mah J, Wagner G, Dunn C. Normalizing need not be the norm: count-based math for analyzing single-cell data. Theory In Biosciences 2023, 143: 45-62. PMID: 37947999, DOI: 10.1007/s12064-023-00408-x.Peer-Reviewed Original Research
2015
The statistical geometry of transcriptome divergence in cell-type evolution and cancer
Liang C, Forrest A, Wagner G. The statistical geometry of transcriptome divergence in cell-type evolution and cancer. Nature Communications 2015, 6: 6066. PMID: 25585899, DOI: 10.1038/ncomms7066.Peer-Reviewed Original ResearchConceptsCell typesCell type modelCell type evolutionAncestral cell typeSister cell typesNovel cell typesGene expression profilesTranscriptome divergenceOrganismal complexityTranscriptomic dataExpression profilesCancer cell linesTranscriptomeCancer cellsCell linesNormal cellsKey predictionsStatistical geometryFANTOM5Statistical modelCellsEncodesTree structureLittle understandingDivergence
2000
Character identification in evolutionary biology: The role of the organism
Wagner G, Laubichler M. Character identification in evolutionary biology: The role of the organism. Theory In Biosciences 2000, 119: 20-40. DOI: 10.1007/s12064-000-0003-7.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsBiological processesBiological charactersImportant biological charactersHigher-level biological processesAdaptive evolutionEvolutionary biologyMathematical theoryRelevant charactersMathematical modelCharacter decompositionOrganismsBiologyOrganismic perspectiveBiological modelsPhysical sciencesBiological theoryIdentificationTheoryTraitsInheritanceModelAnalytical methodCellsCharacterAppropriate instances