ArticleBMC evolutionary biology2008
Patterns of evolutionary constraints on genes in humans.
Article in BMC evolutionary biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
14 citing papers in PubMed, 22 citations in OpenAlex.
- Transcription factor roles in the local adaptation to temperature in the Andean Spiny Toad Rhinella spinulosa.Scientific reports · 2024Article
- Analysis of gene expression in the postmortem brain of neurotypical Black Americans reveals contributions of genetic ancestry.Nature neuroscience · 2024Article
- Genetic and environmental contributions to ancestry differences in gene expression in the human brain.bioRxiv : the preprint server for biology · 2023Article
- Identification of 121 variants of honey bee Vitellogenin protein sequences with structural differences at functional sites.Protein science : a publication of the Protein Society · 2022Article
- Modelling the evolution of transcription factor binding preferences in complex eukaryotes.Scientific reports · 2017Article
- Hypoxia Inducible Factor (HIF) transcription factor family expansion, diversification, divergence and selection in eukaryotes.PloS one · 2017Article
- Feature-based classification of human transcription factors into hypothetical sub-classes related to regulatory function.BMC bioinformatics · 2016Article
- Dry and wet approaches for genome-wide functional annotation of conventional and unconventional transcriptional activators.Computational and structural biotechnology journal · 2016Review
- The complete chloroplast genome provides insight into the evolution and polymorphism of Panax ginseng.Frontiers in plant science · 2014Article
- Copy neutral loss of heterozygosity is more frequent in older ovarian cancer patients.Genes, chromosomes & cancer · 2013Article
- Article
- Expression level, cellular compartment and metabolic network position all influence the average selective constraint on mammalian enzymes.BMC evolutionary biology · 2011Article
- Exploring the potential relevance of human-specific genes to complex disease.Human genomics · 2011Review
- A census of human transcription factors: function, expression and evolution.Nature reviews. Genetics · 2009Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
Abstract
backgroundDifferent regions in a genome evolve at different rates depending on structural and functional constraints. Some genomic regions are highly conserved during metazoan evolution, while other regions may evolve rapidly, either in all species or in a lineage-specific manner. A strong or even moderate change in constraints in functional regions, for example in coding regions, can have significant evolutionary consequences.
resultsHere we discuss a novel framework, 'BaseDiver', to classify groups of genes in humans based on the patterns of evolutionary constraints on polymorphic positions in their coding regions. Comparing the nucleotide-level divergence among mammals with the extent of deviation from the ancestral base in the human lineage, we identify patterns of evolutionary pressure on nonsynonymous base-positions in groups of genes belonging to the same functional category. Focussing on groups of genes in functional categories, we find that transcription factors contain a significant excess of nonsynonymous base-positions that are conserved in other mammals but changed in human, while immunity related genes harbour mutations at base-positions that evolve rapidly in all mammals including humans due to strong preference for advantageous alleles. Genes involved in olfaction also evolve rapidly in all mammals, and in humans this appears to be due to weak negative selection.
conclusionWhile recent studies have identified genes under positive selection in humans, our approach identifies evolutionary constraints on Gene Ontology groups identifying changes in humans relative to some of the other mammals.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.