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Record W2005064829 · doi:10.1191/0309133306pp496pr

Molecular biogeography in 2005: back to the future

2006· article· en· W2005064829 on OpenAlexaff
Daniel R. Brooks

Bibliographic record

VenueProgress in Physical Geography Earth and Environment · 2006
Typearticle
Languageen
FieldBiochemistry, Genetics and Molecular Biology
TopicGenetic diversity and population structure
Canadian institutionsUniversity of Toronto
Fundersnot available
KeywordsContext (archaeology)Evolutionary biologyBiogeographyMitochondrial DNAGrowth spurtDimension (graph theory)BiologyPhylogeneticsMolecular phylogeneticsEcologyPaleontologyGeneticsMathematics

Abstract

fetched live from OpenAlex

The cosmologist Stephen Hawking hasdubbed the twenty-first century the centuryof complexity. Biogeography has experienceda significant growth spurt in the past yearincorporating evolutionary complexity to adegree previously only imagined. Most of thisgrowth has been in the area of historical bio-geography, that is, studies encompassing thegeographic context of evolution. The princi-ples and theories, and methods of analysis,were not developed by molecular biologistsand are not constrained to molecular biology.Molecular data, however, add an essentialempirical dimension to this fascinating area ofresearch.As in previous recent years, the greatestnumber of publications and the greatestamount of effort by molecular biologists inbiogeography has been in the area called phy-logeography (see review by Riddle andHafner, 2004). Riddle (2005) discussed threeareas of research that are of especial interestto phylogeographers at the moment. The firstof these involves the ongoing controversyover the utility of mitochondrial DNA(mtDNA) in evolutionary studies. A growingnumber of systematists question the utility ofmtDNA for phylogeny reconstruction. Boththe high rate of evolutionary turnover andmaternal-only pattern of inheritance mayproduce incongruence between mtDNAgene trees and species phylogenies; for an excellent discussion, see Taggart

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

How this classification was reachedexpand

Full frame machine prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.

metaresearch head score (Codex)0.005
metaresearch head score (Gemma)0.008
Version: metacan-v3-hybrid-931329e0061cValidation status: machine_predicted_unvalidated
Candidate categoriesnone
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Theoretical or conceptual · Consensus signal: none
GenreCandidate signal: Empirical · Consensus signal: none
Teacher disagreement score0.010
Threshold uncertainty score0.047

Distilled classifier scores by category (both heads)

CategoryCodexGemma
Metaresearch0.0050.008
Meta-epidemiology (narrow)0.0010.001
Meta-epidemiology (broad)0.0010.000
Bibliometrics0.0020.003
Science and technology studies0.0010.007
Scholarly communication0.0060.015
Open science0.0010.003
Research integrity0.0060.006
Insufficient payload (model declined to judge)0.0100.002

Machine scores (provisional)

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

Opus teacher head0.003
GPT teacher head0.186
Teacher spread0.183 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Classification

machine, unvalidated

Machine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.

The models applied no category: nothing in the taxonomy fit this work.
Study designTheoretical or conceptual
Domainnot available
GenreEmpirical

How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".

Quick stats

Citations4
Published2006
Admission routes1
Has abstractyes

Explore more

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