table index

o-o adhesion signaling tables
o-o cancer tables
o-o cell biology tables
o-o evolution tables
o-o genetics tables
o-o lipids tables
o-o metabolism tables
o-o photosynthesis tables
o-o prokaryote tables

Alphabetic links to Glossary items:
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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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adhesion signaling tables

 Cell Adhesion Molecules
 Immune Cytokines
 Receptor Signal Transduction
 Second Messengers
 Cell signaling

סּ adhesion ~ adhesion molecules סּ apoptosis ~ cadherins ₪ cell cycle סּ cell growth סּ cell membranes סּ cell motility ₪ cellular fate סּ cellular stress response ₪ cellular survival סּ chemotaxis סּ communication סּ concentration gradients ~ cytokines סּ cytoplasm סּ cytoskeleton סּ death of cells סּ death receptor ₪ differentiation & embryogenesis סּ ECM סּ energy transducers סּ extracellular matrix ~ immunoglobulins ~ integrins סּ ion channels סּ microtubules ¤ mitogens סּ mitosis ₪ molecular switches סּ physiological function ¤ proliferation סּ protein degradation סּ pumps סּ receptor proteins סּ receptor-mediated endocytosis ~ receptor tyrosine kinases ~ Rho GTPase ₪ regulation ~ second messengers ~ selectins סּ transport

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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cancer tables

 Malignant Transformation
 Oncogenes Proto-oncogenes

¤ Cancer ¤¤ adenoviruses ¤ amplification ¤ carcinogenesis ¤ c-Fos ¤ c-Jun ¤ c-Myc ¤ c-Sis ¤ estrogen receptors ¤ gene amplification ¤ genetic predispositon ¤ HBV ¤ HIV ¤ HPV ¤ HTLV-I ¤ immune evasion ¤ irradiation ¤ malignant transformation ¤ metastasis ¤ mitogens ¤ mutagens ¤ MYC ¤ mutations ¤ neoplasia ¤ neoplastic mutations ¤ non-mutagenic carcinogens ¤ oncogenes ¤ p53 ¤ proliferation ¤ proto-oncogenes ¤ radiation ¤ Ras ¤ Rb ¤ retroviral mechanisms of carcinogenesis ¤ retroviruses ¤ signaling molecules ¤ SRC genes ¤ T-antigens ¤ TP53 ¤ tumor antigens ¤ tumor suppressors ¤ tumorigenic viruses ¤ viral carcinogens ¤ v-Fos ¤ v-Sis ¤ v-Myc ¤

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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cell biology tables

 Apoptosis vs Necrosis
 Apoptosis
 Cell Adhesion Molecules
 Cell signaling
 Immune Cytokines
 Receptor Tyrosine Kinases (RTKs)
 Receptor Signal Transduction
 Second Messengers
 Malignant Transformation
 Oncogenes Proto-oncogenes

סּ CELL BIOLOGY סּ active transport סּ adhesion סּ apoptosis סּ cell growth סּ cell membranes סּ cell motility סּ centrioles סּ chemotaxis סּ chloroplast סּ chromosomes ₪ cellular fate ₪ cell cycle סּ cell-cycle control סּ cellular stress response סּ centrioles סּ chemotaxis סּ chloroplast סּ chromosomes סּ cilia סּ communication סּ concentration gradients סּ cytoplasm סּ cytoskeleton סּ death of cells סּ death receptor ₪ differentiation & embryogenesis סּ ECM סּ energy transducers סּ endoplasmic reticulum סּ endosomes סּ eukaryotes, eukaryotic סּ exosome סּ extracellular matrix סּ Golgi apparatus סּ ion channels סּ lysosome ¤ malignant transformation סּ meiosis סּ microtubules סּ migration ¤ mitogens סּ mitosis סּ mitochondria, mitochondrion סּ motility ¤ mutagens סּ nuclear membrane סּ nuclear pore סּ nucleolus סּ nucleus סּ peroxisome סּ phagocytosis סּ photosynthesis סּ physiological function סּ pinocytosis סּ plant cell סּ prokaryotes, prokaryotic ¤ proliferation סּ protein degradation סּ proteasome ~ PTKs סּ pumps סּ receptor proteins סּ receptor-mediated endocytosis ~ receptor tyrosine kinases סּ reproduction סּ ribosomes ~ RTKs סּ spindle סּ structure סּ timeline of life סּ transport סּ vacuole סּ vesicle סּ

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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evolution tables

 Genotype Variability

»» Biological Evolution »» Beyond Darwin and Neo-Darwinism »» Punctuated equilibria »» The modern synthesis »» Basic mechanisms of evolution »» Speciation »» Genetic drift »» Gene flow »» Mutation »» Natural selection »» Horizontal Gene Transfer »» Conjugation »» Transduction »» Transformation »» Non-disjunction »» Genetics : Molecular Genetics »» Important features of the genome and proteome »» Conserved & Consensus »» Deletion »» Duplication »» Frameshift »» Insertion »» Inversion »» Meiosis »» mispairing »» Recombination »» Substitution »» Translocation »» Population Genetics : Population Genetics and Formulae »» Mendel's Laws »» Epistasis »» Bottleneck »» Founder effect »» Persistence of functional gene duplicates »» Phyletic gradualism »» Diagrams & Tables: Biological variation »»

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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genetics tables

 Gene Regulation in E.coli
 Biological variation
 Regulatory Proteins Sequences

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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lipids tables

 lipoproteins
 saturation of triacylglygerols

סּ cell membranes סּ chloroplast ~ diacylglycerol סּ endosomes סּ exosome φ lipids & fatty acids סּ lysosome סּ mitochondria סּ nuclear membrane סּ nuclear pore סּ nucleolus סּ nucleus סּ peroxisome סּ phagocytosis ♦ phospholipases ~ phospholipase C-gamma ~ phospolipid סּ pinocytosis φ sphingolipids סּ structure φ triacylglycerols סּ vacuole סּ vesicle סּ

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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metabolism tables

 Electron Transport Chain vs Oxidative Phosphorylation
 Enzymes Function Krebs Cycle
 Enzymes Cofactors of Krebs Cycle
 Phosphate-handling enzymes

anabolic pathways : • anabolism and catabolism • acetyl CoA pathway • Calvin cycle • C-3 • C-4 • CAM •: Crassulacean Acid Metabolism : Hatch-Slack pathway • electron transfer chain : redox reactions • HMG-CoA-reductase pathway : Isoprenoid biosynthesis in plants methylerythritol phosphate & HMG-CoA-reductase pathway • Light-reactions •: MEP pathway : mevalonate pathway : mevalonate-dependent (MAD) route : MVA independent • Photosynthesis Overview •: cyclic photophosphorylation :• Light-reactions •: noncyclic photophosphorylation :• Nonoxygenic photosynthesis • Oxygenic photosynthesis • Photophosphorylation •: cyclic photophosphorylation : noncyclic photophosphorylation :• Nonoxygenic photosynthesis • Oxygenic photosynthesis : redox reactions : electron transfer chain :

catabolic pathways: acetyl-CoA : aerobic respiration • anabolism and catabolism • anaplerotic reactions • beta-oxidation • glycolysis • glyoxylate cycle : catabolism and anabolism • catabolism : citric acid cycle • Krebs cycle • oxidative phosporylation : respiration - aerobic • : TCA cycle : tricarboxylic acid cycle • : image catabolism vs anabolism :

Prokaryote metabolism: Carbon fixation in Cyanobacteria, prochlorophytes: • Calvin cycle = C-3 = RuBP • Metabolism • glyoxylate cycle • 3-hydroxypropionate cycle • rACA • reductive acetyl CoA pathway • reverse tricarboxyclic acid cycle • rTCA • RuBP• Prokaryote Physiology & Communication• Interactions in Bacteria • Bacterial motility • Phosphorylation switches • Photosynthetic bacteria • Prokaryote Genetics & Biochemistry• Control of gene expression • Recombinant DNA Restriction Enzmes Restriction Endonucleases • Horizontal Gene Transfer • Conjugation • Transduction • Transformation • Symbiosis •

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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photosynthesis tables

 Overview of Photosynthesis
 Structure of bacteriochlorophylls
 Comparison of Photosynthesis and Respiration
 Comparison of Plant and Bacterial Photosynthesis
 Comparison of C-3, C-4, CAM plants

• • Section Photosynthesis • Calvin cycle • C-3 • C-4 • CAM • Chloroplast • Chlorosomes • Cyanobacterial cell • Mitochondria • Phycobilisomes : cyclic photophosphorylation : • Light-reactions : noncyclic photophosphorylation : • Nonoxygenic photosynthesis • Oxygenic photosynthesis • Photosynthesis Overview • Photophosphorylation • Phycobilisomes • Plant cell • Timeline •• • Section Pigments • Antenna and Reaction Center • Bacteriochlorophylls • bacteriochlorophylls • beta-carotene •• Carotenoids • carotenoids • chlorophyll •• Chlorophylls and accessory pigments • Pigments and absorption spectra • Phycobilins • phycocyanin • phycoerythrin • Phycobilisomes •

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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prokaryote tables

 Comparisons of Eubacteria, Archaea, and Eukaryotes
 Cell walls of Prokaryotes
 Electron acceptors for respiration and methanogenesis in prokaryotes
 Gene Regulation in E.coli
 Glycolysis in bacteria
 Lithotrophic prokaryotes
 Structure of bacteriochlorophylls
 Comparison of Plant and Bacterial Photosynthesis

æ Structure • Prokaryote structure • Cell wall
æ Taxonomy & Phylogeny • Taxonomy and Phylogeny • Eubacteria • The Archaea
æ Physiology & Communication • Interactions in Bacteria • Bacterial motility • chemotactic signaling, chemotaxis • Phosphorylation switches • Photosynthetic bacteria
æ Genetics & Biochemistry • Control of gene expression • Recombinant DNA Restriction Enzmes Restriction Endonucleases • Stress genes, proteins, molecular chaperones • Horizontal Gene Transfer • Conjugation • Transduction • Transformation • Symbiosis
æ Phyla • Domains • Kingdoms • Phylum • Division • Aquifex • Thermotoga • Green nonsulfur • Deinococcus • Bacteroides-Flavobacteria • Planctomyces • Gram-positive • Chlamydia • Cyanobacteria • Spirochetes • Green sulfur • Proteobacteria • green filamentous • green phototrophic • green sulfur • green nonsulfur • prochlorophytes • purple sulfur • purple nonsulfur • Rickettsiales • (sulfur bacteria) • Nanoarchaeota ae

۰۰ DNA viruses ۰۰ retroviruses ۰۰ RNA viruses ۰۰ viral replication ۰۰

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Companion Sites : Gray Sites α Abiogenesis & Evolution √ Algorithms of Evolution ¤ Cancer סּ Cell Biology ~ Chemistry of Life Ω Complex Systems ººº Cyanobacteria ◊ Enzymes ₪ Evo Devo Ơ Fat ф Immunology »» Mechanisms of Evolution ○ Molecular Biology ** Origin of Life ◘ Paleogeology ¿ Refuting ID ǒ Serial Endosymbiosis ζζ Sleep • Stromatolites † Taxonomy Phylogeny ۰۰ Virus • White Sites  Diagrams & Tables æ Eubacteria & Archaea φ Molecule → Molecular Paths ››› Pathways ☼ Photosynthesis • Black Sites Ǒ Endosymbiosis ō Organics •

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