Which site?

Let me know about broken links, scientific comments on content, or suggestions for content. Please expect a delay before your comment appears. Comments from creationists and id-ists will not be accepted.

First, though, from the list below please pick & click the site about which you wish to comment and please mention which topic:

Gray Sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Complex Systems : Cyanobacteria : Enzymes : Evo Devo : Fat : Godspell Follies : Glossary : Immunology : Mechanisms of Evolution : Molecular Biology : Origin of Life : Paleogeology : Protein : Receptor : Serial Endosymbiosis : Stromatolites : Sleep : Taxonomy Phylogeny : Tissue : Virus :

White Sites: Archaea & Eubacteria : Diagrams & Tables : Evolution in Action : Photosynthesis : Molecules : Pathways : Signaling

Black Sites: Endosymbiosis : Organics

The sites are under construction and there is some overlap in content.

Abiogenesis & Evolution

Sections Abiogenesis & Evolution:
In the Beginning . Illogical Deceit theory . RNA . DNA . Basic Physical Chemistry . Basic Biochemistry . Biochemical Energetics . Informational Macromolecules . Lipids & Membranes. Darwin . Diversity . Selection . Logic & Science . Neo-Darwinism . Computer Modeling . Tree of Life . Protists . Fossils . Paleogeology & Paleoclimate . Proterozoic & Archaean . Cambrian Explosion . Extinction Events . Hominids . Hominid Migrations . Fallacies of Logic . Godspell Follies

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Algorithms of Evolution

Algorithms of Evolution items : * directional epistasis * epistasis * horizontal gene transfer * lateral gene transfer * multilinear epistatic model

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Cancer

¤ Cancer ¤ carcinogenesis ¤ mitogens ¤ oncogenes ¤ proliferation ¤ p53 ¤ Ras ¤ retroviruses ¤ Rb ¤ signaling molecules ¤ tumor suppressors ¤ tumorigenic viruses ¤ site map

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Cell Biology

Cell Biology Items : • CELL BIOLOGY • active transport • apoptosis • cell membranes • centrioles • cilia• communication • concentration gradients • cytoplasm • cytoskeleton • death of cells• energy transducers • endoplasmic reticulum • endosomes • eukaryotic • exosome• Golgi apparatus • ion channels • lysosome • meiosis • microtubules • mitosis• mitochondrion • nuclear membrane • nuclear pore • nucleolus • nucleus • peroxisome• phagocytosis • photosynthesis • physiological function • pinocytosis • plant cell• prokaryotic • protein degradation • pumps • receptor proteins• receptor-mediated endocytosis • reproduction • ribosomes • spindle • structure• transport • vacuole • vesicle • CELL SIGNALING • GPCRs • GPCR families • hormones • Nitric Oxide• neurotransmission • neuronal interconnections • phosphotransfer-mediated signaling pathways • Protein Kinase Signaling Networks • signaling gradients• MOLECULAR BIOLOGY • amino acids • caspases • proteins

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Chemistry of Life

Chemistry of Life items: ~ Molecular Genetics Overview
~ activator ~ adhesion molecules ~ alternative splicing ~ allele ~ ATPases ~ base ~ base excision repair ~ cadherins ~ capping ~ cellular stress response ~ chromosome ~ cis versus trans-acting factors ~ codon ~ cyclin-dependent kinases ~ cytokines ~ DNA ~ DNA damage by ROS ~ DNA repair ~ DNA polymerases ~ DNA ligase ~ DNA mutation and alkylation ~ double strand breaks ~ enhancer ~ epigenetics ~ exon ~ genes ~ gene regulation ~ genome ~ targetted genetic repair
~ growth factors ~ helicases ~ heterochromatin ~ hnRNP ~ immunoglobulins ~ insulator ~ integrins ~ intron ~ internal ribosomal entry site ~ mRNA ~ miRNAs ~ mismatch repair ~ nonsense-mediated decay ~ nonstop decay ~ nuclear speckles ~ nucleic acids ~ nucleosome
~ nucleotide ~ nucleotide excision repair ~ Okazaki fragments ~ open reading frame ~ oxidative stress and DNA damage ~ oxoG repair ~ polyadenylation ~ preinitiation complex ~ pre-mRNA
~ pre-mRNA splicing ~ promoters ~ proteome ~ receptor tyrosine kinases ~ regulatory proteins ~ replication ~ repressor ~ response elements ~ retrotransposons ~ restriction enzmes ~ reverse transcriptase ~ Rho GTPase ~ ribosomes ~ ribosomal structure ~ ribosome shunting ~ ribozymes ~ ribozymes in repair of RNA and DNA ~ RNA ~ RNA polymerase ~ RNA processing ~ rRNAs ~ second messengers ~ selectins ~ self-splicing ~ serine/threonine kinases ~ silencers ~ snoRNAs ~ splice-site ~ spliceosome ~ SSOs ~ transcription ~ transcription factors ~ transcription initiation ~ termination of transcription ~ transposable elements ~ trans-splicing ribozymes and therapeutics ~ translation ~ tRNA ~ ubiquitin ~ Research techniques ~ SITE MAP
~ BIOCHEMISTRY
~ Biochemistry overview ~ amines ~ amino acids ~ amphipathic ~ chemical gradients ~ cofactor ~ enzyme ~ heterocyclic ~ hydrogen bond ~ hydrophilic ~ hydrophobic ~ peptide ~ phospolipid ~ proteins ~ thermochemistry ~ Basics ~ Horizontal Genomics: Mobile genetic elements: the agents of open source evolution.

Topics item links ~ adhesion items ~ chromosome items ~ damage repair items ~ decay items ~ enzymes items ~ energy items ~ evolution items ~ genome items ~ protein items ~ RNA processing items ~ regulation items ~ RNA items ~ replication items ~ research items ~ signaling items ~ transcription items ~ splicing items ~ translation items ~ Item links

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Complex Systems

Ω Complex Systems Ω biological complexity Ω illogical deceit theory Ω necessary vs sufficient
Ω social systems Ω Spinoza's God Ω systems theory

Cyanobacteria

Cyanobacteria items: ~ The Cyanobacteria ~ Photochemistry ~ Phylogenetic relationships ~ Fossilized cyanobacteria

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Comments on the nonexistence of . . .

A-Deistic
Adeistic
Black Out
cosmic
Eine Kleine Nattermusing
eMusings
eVolition
Galaria
Godborygmi
Godspell Follies
Gray Matters
MetaThoughts
Mimble Wimble
Naturalism
BLogodaedaly
palimpsest
Salient
Science of Evolution
Sechuam
Sintheist
Tabula Flexuosa
The Scarlet A
Weltschauung

Enzymes

◊ Enzymes ◊ reaction energetics ◊ bonds◊ adenylate cyclases ◊ ATPases ◊ cyclin-dependent kinases ◊ phosphatases ◊ phospholipases ◊ phosphodiesterases ◊ phosphorylases ◊ protein kinases ◊ receptor tyrosine kinases ◊ serine/threonine kinases

Evo Devo

Evo Devo items^ Evo Devo ^ alternative splicing ^ alternative 3' splicing ^ alternative 5' splicing^ epigenetic mechanisms ^ ESE ^ ESS ^ Evo Devo ^ exon skipping ^ intron retention ^ ISE ^ ISS

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Fat

Ơ adinopectin Ơ adipose tissue Ơ appetite Ơ BMI Ơ diabetes Ơ genetic predisposition Ơ hypocretin Ơ hypothalamus Ơ insomnia Ơ leptin Ơ medications Ơ metabolic rate Ơ neuroendocrine Ơ orexin Ơ thyroid Ơ TNFa Ơ fat animations Ơ site map

Godspell Follies

Godspell Follies Themes : – God by Any Name – Fallacies of Logic – Court, Articles, News

Godspell Follies Items : * God by Any Other Name is still God * Illogical Deceit Theory * Logic & Science * Biological evolution * Creationism vs Evolution * Recapitulating recapitulation * Reducible complexity * Fallacies of Logic * over-extrapolating * ad hominem * authority * composing problems * denial * deliberate ambiguities * fallatio * incredulity * irrelevance * proof-disproof muddles * red herrings * shifting the burden of proof * huff & puff * tu quoque * The Wedge Document * Keeping up with the Jones decision * On the teaching of Pseudoscience * Contradictions within idism * Scripture vs Scholarship * Answers to Creationist Nonsense * Creationist and ID confusion about Entropy * Ignorance in Kansas

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Glossary

◦ A ◦ B ◦ C ◦ D ◦ E ◦ F ◦ G ◦ H ◦ I ◦ J ◦ K ◦ L ◦ M ◦ N ◦ O ◦ P ◦ Q ◦ R ◦ S ◦ T ◦ U ◦ V ◦ W ◦ X ◦ Y ◦ Z ◦ animation index ◦ diagram index ◦ image index ◦ micrograph index ◦ table index ◦ sem/tem index ◦ video index ◦

Immunology

ф antibodies ф antigen ф APCs ф autoimmunity ф cancer and immune system
ф cancers of immune system ф CD ф clonal selection ф complement system ф dendritic cells ф eosinophils ф granulocytes ф hemotopoiesis ф humoral immunity ф HIV/AIDs ф immune cytokines ф killer T cells ф leukocytes ф lymphocytes ф lymphoid system ф lymphokines
ф macrophages ф MHC ф migration ф monocytes ф neutrophils ф pattern-recognition receptors ф phagocyte ф receptors ф signaling ф surface receptors ф T cells ф thymus ф vaccines ф

Mechanisms of Evolution

Mechanisms of Evolution items ~ Beyond Darwin and Neo-Darwinism ~ The modern synthesis ~ Punctuated equilibria ~ Basic mechanisms of evolution ~ Genetic drift ~ Gene flow ~ Mutation ~ Natural selection ~ Horizontal Gene Transfer ~ Conjugation ~ Transduction ~ Transformation ~ Molecular Genetics ~ Genome and Proteome ~ Important features of the genome and proteome ~ Conserved & Consensus ~ Insertion ~ Inversion ~ Meiosis ~ Recombination ~ Population Genetics and Formulae ~ Bottleneck ~ Founder effect ~ Persistence of functional gene duplicates ~ Phyletic gradualism

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Molecular Biology

Molecular Biology items : alternative splicing : base excision repair : capping : cis versus trans-acting factors : codon :DNA : DNA damage by ROS : DNA polymerases : DNA repair : double strand breaks :enhancer : epigenetics : exon : genes : genome : gene regulation : helicases : heterochromatin : insulator : intron : messenger RNA mRNA : micro RNAs miRNAs : mRNA : mismatch repair : nonsense-mediated decay : nonstop decay : nuclear speckles : nucleic acids : nucleosome : nucleotide : nucleotide excision repair : open reading frame : oxidative stress and DNA damage : oxoG repair : polyadenylation : pre-mRNA : pre-mRNA splicing : proteome : replication : Research techniques : ribosomal structure : regulatory proteins : ribosomal structure : ribozymes in repair of RNA and DNA : RNA : RNA polymerase : RNA processing : targetted genetic repair : transcription : termination of transcription : transfer RNA tRNA : translation : trans-splicing ribozymes and therapeutics : silencers : snoRNAs : spliceosome : SSOs :

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Origin of Life

Origin of Life Sections : _ Abiogenesis _ Paleogeology _ Paleo-atmosphere _ Chemistry _ Models _ RNA world _ Protein world _ Submarine Vents _ Space _ Minimal Genome _ Clay _ Basic Cell _ Evolution

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Paleogeology

Paleogeology items ~ Hadean ~ Paleogeology and Paleoclimate ~ Timeline Earth Life ~ "Peribiotic" conditions?~ Climate and Extinction ~ Prebiotic atmosphere ~ Hydrogen

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Protein

§ Proteins and Proteomics § collagen § PH family

Receptor

Serial Endosymbiosis

Serial Endosymbiosis items • Serial Endosymbiosis Theory (SET) • Experimental evidence for Endosymbiosis • Mitochondrial origins • Secondary endosymbiosis • History of ideas concerning endosymbiosis • Endosymbiotic transfers • Endosymbiotic Gene Transfer • Horizontal Gene Transfer • Diagrams of proposed mechanism of SET • Photosynthesis in Eukaryotes

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Stromatolites

Stromatolites items : ~ Cyanobacteria and stromatolites ~ Modern stromatolites – living fossils~ Stromatolite structure ~ Ancient stromatolite reefs ~ Imaging fossil cyanobacteria~ Stromatolite fossils

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Sleep

ʑ Sleep ʑ circadian biology ʑ hypothalamus ʑ insomnia ʑ narcolepsy ʑ NREM ʑ pineal gland
ʑ REM ʑ SDB ʑ SIDS ʑ sleep deprivation ʑ sleep apnea ʑ ventrolateral preoptic ʑ reticular activating pathways

Taxonomy Phylogeny

Taxonomy Phylogeny items ^ Bacteria ^ Cambrian explosion ^ Endosymbiotic transfer events ^ History of taxonomic concepts ^ Phylogenetics ^ Taxonomy

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :

Tissue

ọ germinal centers
ọ ectoderm ọ mesoderm ọ endoderm
ọ site map

Virus

۰۰ retroviruses ۰۰

Click on the title of any item to return to the original site – or explore other sites: Abiogenesis & Evolution : Algorithms of Evolution : Cancer : Cell Biology : Chemistry of Life : Cyanobacteria : Endosymbiosis : Enzymes : Eubacteria & Archaea : Evo Devo : Godspell Follies : Mechanisms of Evolution : Molecular Biology : Molecules : Organics : Origin of Life : Paleogeology : Pathways : Photosynthesis : Serial Endosymbiosis : Stromatolites : Taxonomy Phylogeny : Virus :