MiPMap: Difference between revisions
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'''MiPMap labels''' provide the backbone of the MiPMap project. The MiPMap labels can be considered as keywords which can be attached to various sources of information (publications). With proper labelling, multidimensional maps of information can be constructed, filtering the sources through various grids. | '''MiPMap labels''' provide the backbone of the MiPMap project. The MiPMap labels can be considered as keywords which can be attached to various sources of information (publications). With proper labelling, multidimensional maps of information can be constructed, filtering the sources through various grids. | ||
The MiPMap labels (filters) are grouped into various topics (properties): | The MiPMap labels (filters) are grouped into various topics (properties). | ||
Ā | |||
Ā | |||
=== MiP areas === | |||
: [[Property:MiP area]] | |||
* Respiration :ā¢ā¢: Instruments;methods :ā¢ā¢: mt-Biogenesis;mt-density :ā¢ā¢: mt-Structure;fission;fusion :ā¢ā¢: mt-Membrane :ā¢ā¢: mtDNA;mt-genetics :ā¢ā¢: nDNA;cell genetics :ā¢ā¢: Genetic knockout;overexpression :ā¢ā¢: Comparative MiP;environmental MiP :ā¢ā¢: Gender :ā¢ā¢: Developmental biology :ā¢ā¢: Exercise physiology;nutrition;life style :ā¢ā¢: mt-Medicine :ā¢ā¢: Patients :ā¢ā¢: Pharmacology;toxicology :ā¢ā¢: mt-Awareness | |||
Ā | |||
=== Mammals;models === | |||
: [[Property:Mammal and model]] | |||
* Human :ā¢ā¢: Pig :ā¢ā¢: Mouse :ā¢ā¢: Rat :ā¢ā¢: Guinea pig :ā¢ā¢: Bovines :ā¢ā¢: Horse :ā¢ā¢: Dog :ā¢ā¢: Rabbit :ā¢ā¢: Cat :ā¢ā¢: Other mammals :ā¢ā¢:Ā :ā¢ā¢: Chicken :ā¢ā¢: Zebrafish :ā¢ā¢: Drosophila :ā¢ā¢: Artemia :ā¢ā¢: Caenorhabditis elegans :ā¢ā¢: Saccharomyces cerevisiae | |||
Ā | |||
=== Non-mammals === | |||
: [[Property:Nonmammal]] | |||
* Birds :ā¢ā¢: Reptiles :ā¢ā¢: Amphibians :ā¢ā¢: Fishes :ā¢ā¢: Chelicerates :ā¢ā¢: Crustaceans :ā¢ā¢: Hexapods :ā¢ā¢: Myriapods :ā¢ā¢: Annelids :ā¢ā¢: Molluscs :ā¢ā¢: Nematodes :ā¢ā¢: Other invertebrates :ā¢ā¢: :ā¢ā¢: Fungi :ā¢ā¢: Plants :ā¢ā¢: Protists :ā¢ā¢: Eubacteria :ā¢ā¢: Archea | |||
Ā | |||
=== Tissues;cellsĀ === | |||
: [[Property:Tissue and cell]] | |||
* HeartĀ Skeletal muscleĀ Nervous systemĀ LiverĀ KidneyĀ Lung;gillĀ Islet Cell; Pancreas; ThymusĀ Endothelial; Epithelial; Mesothelial CellĀ Blood cells FatĀ Sex organs | |||
Ā | |||
=== Cell lines === | |||
: [[Property:Cell line]] | |||
* CHOĀ HEKĀ HeLaĀ NeuroblastomaĀ FibroblastĀ HUVECĀ Macrophage-derivedĀ Stem cellsĀ Other cell lines | |||
Ā | |||
=== Preparations === | |||
: [[Property:Preparation]] | |||
* Intact OrganismĀ Intact OrganĀ Intact cellsĀ Permeabilized cellsĀ Permeabilized tissueĀ HomogenateĀ Isolated MitochondriaĀ SMPĀ ChloroplastsĀ EnzymeĀ Oxidase; Biochemical Oxidation | |||
Ā | |||
=== Enzymes === | |||
: [[Property:Enzyme]] | |||
* Adenine Nucleotide TranslocaseĀ Complex IĀ Complex II; Succinate DehydrogenaseĀ Complex IIIĀ Complex IV; Cytochrome c OxidaseĀ Complex V; ATP SynthaseĀ Inner mtMembrane TransporterĀ Marker EnzymeĀ SupercomplexĀ TCA Cycle and Matrix DehydrogenasesĀ Uncoupling protein | |||
Ā | |||
=== Stress conditions === | |||
: [[Property:Stress]] | |||
* Cell deathĀ HypoxiaĀ Ischemia-Reperfusion; PreservationĀ Permeability transitionĀ RONS; Oxidative StressĀ TemperatureĀ | |||
Ā | |||
=== Pathological states === | |||
: [[Property:Diseases]] | |||
* Aging; senescenceĀ Alzheimer'sĀ AutismĀ CancerĀ CardiovascularĀ COPDĀ DiabetesĀ InheritedĀ InfectiousĀ Muscular dystrophyĀ NeurodegenerativeĀ ObesityĀ Parkinson'sĀ SepsisĀ OtherĀ Ā | |||
Ā | |||
=== Regulation;kinetics === | |||
: [[Property:Respiration and regulation]] | |||
* Aerobic glycolysisĀ ADPĀ ATP; ADP; AMP; PCrĀ ATPĀ ATP productionĀ CalciumĀ Coupling efficiency;uncouplingĀ Cyt cĀ Flux controlĀ InhibitorĀ Ion&substrate transportĀ Ion;substrate transportĀ mt-Membrane potentialĀ O2Ā PCr;CrĀ pHĀ PiĀ Redox stateĀ SubstrateĀ TemperatureĀ Threshold;excess capacityĀ UncouplerĀ Substrate; Glucose; TCA CycleĀ Fatty AcidĀ Amino Acid | |||
Ā | |||
=== Coupling states === | |||
: [[Property:Coupling states]] | |||
* LEAKĀ ROUTINEĀ OXPHOSĀ ETS | |||
Ā | |||
=== Substrate states === | |||
: [[Property:Substrate states]] | |||
* CIĀ CIIĀ ETFĀ GpDHĀ CIIIĀ CIVĀ CI+IIĀ Other combinationsĀ ROXĀ Ā High-resolution respirometry:Ā Oxygraph-2kĀ TIP2kĀ FluorometryĀ pHĀ NOĀ TPPĀ CaĀ SpectrophotometryĀ O2k-ManualĀ ProtocolĀ TheoryĀ Ā | |||
Ā | |||
=== High-resolution respirometry - HRR === | |||
: [[Property:Instrument and method]] | |||
Ā | |||
=== Additional labels === | |||
: | |||
Ā | |||
[[File:Bioblast-publications.jpg|left|80px]] | [[File:Bioblast-publications.jpg|left|80px]] | ||
== Publications in the MiPMap: mitochondrial properties in organisms (species), cell types and tissues == | == Publications in the MiPMap: mitochondrial properties in organisms (species), cell types and tissues == | ||
* [[O2k-Publications: Topics]] | |||
* [[Special:BrowseData/Publications|Browse publications using MiPMap filters]] | |||
== Initiation == | == Initiation == | ||
* Presented at [[Bioblast 2012]]. | * Presented at [[Bioblast 2012]]. | ||
* Focus for [http://www.mitophysiology.org/?mip2013 MiP''conference'' on Comparative Mitochondrial Physiology]. | * Focus for [http://www.mitophysiology.org/?mip2013 MiP''conference'' on Comparative Mitochondrial Physiology]. | ||
* [[MiP2013 Abstracts]] | |||
* Link to [[Mitochondrial Global Network]] | * Link to [[Mitochondrial Global Network]] | ||
Revision as of 15:29, 7 June 2014
Description
The project Mitochondrial Physiology Map (MiPMap) is initiated to provide an overview of mitochondrial properties in cell types, tissues and species. As part of Bioblast, MiPMap may be considered as an information synthase for Comparative Mitochondrial Physiology. Establishing a comprehensive database will require global input and cooperation.
A comparative database of mitochondrial physiology may provide the key for understanding the functional implications of mitochondrial diversity from mouse to man, and evaluation of altered mitochondrial respiratory control patterns in health and disease (Gnaiger 2009).
Abbreviation: MiPMap
MitoPedia methods:
Respirometry,
Fluorometry,
Spectrophotometry
MitoPedia topics: "Respiratory state" is not in the list (Enzyme, Medium, Inhibitor, Substrate and metabolite, Uncoupler, Sample preparation, Permeabilization agent, EAGLE, MitoGlobal Organizations, MitoGlobal Centres, ...) of allowed values for the "MitoPedia topic" property.
Respiratory state"Respiratory state" is not in the list (Enzyme, Medium, Inhibitor, Substrate and metabolite, Uncoupler, Sample preparation, Permeabilization agent, EAGLE, MitoGlobal Organizations, MitoGlobal Centres, ...) of allowed values for the "MitoPedia topic" property.,
Enzyme,
Media for respirometry,
Inhibitor,
Substrate and metabolite,
Uncoupler,
Permeabilization agent
MiPMap labels
MiPMap labels provide the backbone of the MiPMap project. The MiPMap labels can be considered as keywords which can be attached to various sources of information (publications). With proper labelling, multidimensional maps of information can be constructed, filtering the sources through various grids.
The MiPMap labels (filters) are grouped into various topics (properties).
MiP areas
- Respiration :ā¢ā¢: Instruments;methods :ā¢ā¢: mt-Biogenesis;mt-density :ā¢ā¢: mt-Structure;fission;fusion :ā¢ā¢: mt-Membrane :ā¢ā¢: mtDNA;mt-genetics :ā¢ā¢: nDNA;cell genetics :ā¢ā¢: Genetic knockout;overexpression :ā¢ā¢: Comparative MiP;environmental MiP :ā¢ā¢: Gender :ā¢ā¢: Developmental biology :ā¢ā¢: Exercise physiology;nutrition;life style :ā¢ā¢: mt-Medicine :ā¢ā¢: Patients :ā¢ā¢: Pharmacology;toxicology :ā¢ā¢: mt-Awareness
Mammals;models
- Human :ā¢ā¢: Pig :ā¢ā¢: Mouse :ā¢ā¢: Rat :ā¢ā¢: Guinea pig :ā¢ā¢: Bovines :ā¢ā¢: Horse :ā¢ā¢: Dog :ā¢ā¢: Rabbit :ā¢ā¢: Cat :ā¢ā¢: Other mammals :ā¢ā¢: :ā¢ā¢: Chicken :ā¢ā¢: Zebrafish :ā¢ā¢: Drosophila :ā¢ā¢: Artemia :ā¢ā¢: Caenorhabditis elegans :ā¢ā¢: Saccharomyces cerevisiae
Non-mammals
- Birds :ā¢ā¢: Reptiles :ā¢ā¢: Amphibians :ā¢ā¢: Fishes :ā¢ā¢: Chelicerates :ā¢ā¢: Crustaceans :ā¢ā¢: Hexapods :ā¢ā¢: Myriapods :ā¢ā¢: Annelids :ā¢ā¢: Molluscs :ā¢ā¢: Nematodes :ā¢ā¢: Other invertebrates :ā¢ā¢: :ā¢ā¢: Fungi :ā¢ā¢: Plants :ā¢ā¢: Protists :ā¢ā¢: Eubacteria :ā¢ā¢: Archea
Tissues;cells
- Heart Skeletal muscle Nervous system Liver Kidney Lung;gill Islet Cell; Pancreas; Thymus Endothelial; Epithelial; Mesothelial Cell Blood cells Fat Sex organs
Cell lines
- CHO HEK HeLa Neuroblastoma Fibroblast HUVEC Macrophage-derived Stem cells Other cell lines
Preparations
- Intact Organism Intact Organ Intact cells Permeabilized cells Permeabilized tissue Homogenate Isolated Mitochondria SMP Chloroplasts Enzyme Oxidase; Biochemical Oxidation
Enzymes
- Adenine Nucleotide Translocase Complex I Complex II; Succinate Dehydrogenase Complex III Complex IV; Cytochrome c Oxidase Complex V; ATP Synthase Inner mtMembrane Transporter Marker Enzyme Supercomplex TCA Cycle and Matrix Dehydrogenases Uncoupling protein
Stress conditions
- Cell death Hypoxia Ischemia-Reperfusion; Preservation Permeability transition RONS; Oxidative Stress Temperature
Pathological states
- Aging; senescence Alzheimer's Autism Cancer Cardiovascular COPD Diabetes Inherited Infectious Muscular dystrophy Neurodegenerative Obesity Parkinson's Sepsis Other
Regulation;kinetics
- Aerobic glycolysis ADP ATP; ADP; AMP; PCr ATP ATP production Calcium Coupling efficiency;uncoupling Cyt c Flux control Inhibitor Ion&substrate transport Ion;substrate transport mt-Membrane potential O2 PCr;Cr pH Pi Redox state Substrate Temperature Threshold;excess capacity Uncoupler Substrate; Glucose; TCA Cycle Fatty Acid Amino Acid
Coupling states
- LEAK ROUTINE OXPHOS ETS
Substrate states
- CI CII ETF GpDH CIII CIV CI+II Other combinations ROX High-resolution respirometry: Oxygraph-2k TIP2k Fluorometry pH NO TPP Ca Spectrophotometry O2k-Manual Protocol Theory
High-resolution respirometry - HRR
Additional labels
Publications in the MiPMap: mitochondrial properties in organisms (species), cell types and tissues
Initiation
- Presented at Bioblast 2012.
- Focus for MiPconference on Comparative Mitochondrial Physiology.
- MiP2013 Abstracts
- Link to Mitochondrial Global Network