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Evolutionary insights into primate skeletal gene regulation using a comparative cell culture model

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/1529-0131(200005)43:5<995::aid-anr6>3.0.co;2-1openalex-snapshot
Risk factors for the incidence and progression of radiographic knee osteoarthritis
inferredcites →https://doi.org/10.1002/ajp.20140openalex-snapshot
Etiology of reactive arthritis in Pan paniscus, P. troglodytes troglodytes, and P. troglodytes schweinfurthii
inferredcites →https://doi.org/10.1002/ajp.20715openalex-snapshot
Skeletal health: primate model of postmenopausal osteoporosis
inferredcites →https://doi.org/10.1002/ajpa.1330790210openalex-snapshot
Apparent age‐related bone loss among adult female Gombe chimpanzees
inferredcites →https://doi.org/10.1002/ajpa.23349openalex-snapshot
Additive genetic variation in the craniofacial skeleton of baboons (genus Papio) and its relationship to body and cranial size
inferredcites →https://doi.org/10.1002/ajpa.23770openalex-snapshot
Exercise‐induced loading increases ilium cortical area in a selectively bred mouse model
inferredcites →https://doi.org/10.1002/ajpa.24041openalex-snapshot
Intraspecific and interspecific investigations of skeletal DNA methylation and femur morphology in primates
inferredcites →https://doi.org/10.1002/jbmr.3698openalex-snapshot
Meta-Analysis of Genomewide Association Studies Reveals Genetic Variants for Hip Bone Geometry
inferredcites →https://doi.org/10.1002/jor.24957openalex-snapshot
An evolutionary perspective of DNA methylation patterns in skeletal tissues using a baboon model of osteoarthritis
inferredcites →https://doi.org/10.1007/7651_2014_142openalex-snapshot
Differentiation of iPSC to Mesenchymal Stem-Like Cells and Their Characterization
inferredcites →https://doi.org/10.1007/s10329-002-0030-8openalex-snapshot
Extraordinarily low bone mineral density in an old female chimpanzee (Pan troglodytes schweinfurthii) from the Mahale Mountains National Park
inferredcites →https://doi.org/10.1007/s12015-014-9581-5openalex-snapshot
Improved Approach for Chondrogenic Differentiation of Human Induced Pluripotent Stem Cells
inferredcites →https://doi.org/10.1016/j.cell.2015.08.036openalex-snapshot
Enhancer Divergence and cis-Regulatory Evolution in the Human and Chimp Neural Crest
inferredcites →https://doi.org/10.1016/j.cell.2019.05.031openalex-snapshot
Comprehensive Integration of Single-Cell Data
inferredcites →https://doi.org/10.1016/j.gde.2020.04.007openalex-snapshot
Prime time for primate functional genomics
inferredcites →https://doi.org/10.1016/j.jhevol.2017.06.014openalex-snapshot
Facing the facts: The Runx2 gene is associated with variation in facial morphology in primates
inferredcites →https://doi.org/10.1016/j.joca.2009.08.010openalex-snapshot
Risk factors for onset of osteoarthritis of the knee in older adults: a systematic review and meta-analysis
inferredcites →https://doi.org/10.1016/j.joca.2013.03.003openalex-snapshot
Reproductive status and sex show strong effects on knee OA in a baboon model
inferredcites →https://doi.org/10.1016/j.joca.2020.04.013openalex-snapshot
Genetic correlations between cartilage regeneration and degeneration reveal an inverse relationship
inferredcites →https://doi.org/10.1016/j.ocl.2006.09.004openalex-snapshot
Osteoarthritis of the Hip and Knee: Sex and Gender Differences
inferredcites →https://doi.org/10.1016/j.stem.2012.09.013openalex-snapshot
Distinct Metabolic Flow Enables Large-Scale Purification of Mouse and Human Pluripotent Stem Cell-Derived Cardiomyocytes
inferredcites →https://doi.org/10.1016/j.stemcr.2014.04.016openalex-snapshot
Stepwise Differentiation of Pluripotent Stem Cells into Osteoblasts Using Four Small Molecules under Serum-free and Feeder-free Conditions
inferredcites →https://doi.org/10.1038/nature24277openalex-snapshot
Genetic effects on gene expression across human tissues
inferredcites →https://doi.org/10.1038/nbt.4096openalex-snapshot
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inferredcites →https://doi.org/10.1038/ncomms14049openalex-snapshot
Massively parallel digital transcriptional profiling of single cells
inferredcites →https://doi.org/10.1038/nrrheum.2010.191openalex-snapshot
Genetic epidemiology of hip and knee osteoarthritis
inferredcites →https://doi.org/10.1038/nrrheum.2013.121openalex-snapshot
Insights from human genetic studies into the pathways involved in osteoarthritis
inferredcites →https://doi.org/10.1038/s41467-019-09860-0openalex-snapshot
GWAS of bone size yields twelve loci that also affect height, BMD, osteoarthritis or fractures
inferredcites →https://doi.org/10.1038/s41467-020-15020-6openalex-snapshot
Differential DNA methylation of vocal and facial anatomy genes in modern humans
inferredcites →https://doi.org/10.1038/s41588-018-0079-yopenalex-snapshot
Genome-wide analyses using UK Biobank data provide insights into the genetic architecture of osteoarthritis
inferredcites →https://doi.org/10.1038/s41588-018-0302-xopenalex-snapshot
An atlas of genetic influences on osteoporosis in humans and mice
inferredcites →https://doi.org/10.1038/s41588-021-00804-3openalex-snapshot
Human–chimpanzee fused cells reveal cis-regulatory divergence underlying skeletal evolution
inferredcites →https://doi.org/10.1038/s41598-018-33478-9openalex-snapshot
A Comparative Assessment of Human and Chimpanzee iPSC-derived Cardiomyocytes with Primary Heart Tissues
inferredcites →https://doi.org/10.1038/s41598-020-67730-yopenalex-snapshot
Synovial cell cross-talk with cartilage plays a major role in the pathogenesis of osteoarthritis
inferredcites →https://doi.org/10.1080/14653240600855905openalex-snapshot
Minimal criteria for defining multipotent mesenchymal stromal cells. The International Society for Cellular Therapy position statement
inferredcites →https://doi.org/10.1089/omi.2011.0118openalex-snapshot
clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters
inferredcites →https://doi.org/10.1093/bioinformatics/btaa687openalex-snapshot
Dream: powerful differential expression analysis for repeated measures designs
inferredcites →https://doi.org/10.1093/biostatistics/kxu038openalex-snapshot
Joint analysis of differential gene expression in multiple studies using correlation motifs
inferredcites →https://doi.org/10.1093/hmg/ddy271openalex-snapshot
Meta-analysis of genome-wide association studies for height and body mass index in ∼700000 individuals of European ancestry
inferredcites →https://doi.org/10.1093/ilar/ilt038openalex-snapshot
Baboons as a Model to Study Genetics and Epigenetics of Human Disease
inferredcites →https://doi.org/10.1093/nar/gkv007openalex-snapshot
limma powers differential expression analyses for RNA-sequencing and microarray studies
inferredcites →https://doi.org/10.1101/835850openalex-snapshot
Decoding the genomic basis of osteoarthritis
inferredcites →https://doi.org/10.1101/gr.254904.119openalex-snapshot
A comparison of gene expression and DNA methylation patterns across tissues and species
inferredcites →https://doi.org/10.1111/j.2517-6161.1995.tb02031.xopenalex-snapshot
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
inferredcites →https://doi.org/10.1177/1947603518759173openalex-snapshot
Assessment of DNA Methylation Patterns in the Bone and Cartilage of a Nonhuman Primate Model of Osteoarthritis
inferredcites →https://doi.org/10.1186/gb-2014-15-2-r29openalex-snapshot
voom: precision weights unlock linear model analysis tools for RNA-seq read counts
inferredcites →https://doi.org/10.1186/s13059-018-1490-5openalex-snapshot
A comparative study of endoderm differentiation in humans and chimpanzees
inferredcites →https://doi.org/10.1210/er.2012-1026openalex-snapshot
The Osteocyte: An Endocrine Cell … and More
inferredcites →https://doi.org/10.1371/journal.pgen.1005793openalex-snapshot
Genetic Variation, Not Cell Type of Origin, Underlies the Majority of Identifiable Regulatory Differences in iPSCs
inferredcites →https://doi.org/10.1371/journal.pgen.1006599openalex-snapshot
Visualizing the structure of RNA-seq expression data using grade of membership models
inferredcites →https://doi.org/10.21203/rs.3.rs-25051/v1openalex-snapshot
Single-cell RNA seq analysis identifies the biomarkers and differentiation of chondrocyte in human osteoarthritis
inferredcites →https://doi.org/10.21203/rs.3.rs-25051/v3openalex-snapshot
Single-cell RNA seq analysis identifies the biomarkers and differentiation of chondrocyte in human osteoarthritis
inferredcites →https://doi.org/10.2307/2661176openalex-snapshot
Primate Adaptation and Evolution
inferredcites →https://doi.org/10.32614/cran.package.fasttopicsopenalex-snapshot
fastTopics: Fast Algorithms for Fitting Topic Models and Non-Negative Matrix Factorizations to Count Data
inferredcites →https://doi.org/10.48550/arxiv.1802.03426openalex-snapshot
UMAP: Uniform Manifold Approximation and Projection for Dimension Reduction
inferredcites →https://doi.org/10.7554/elife.07103openalex-snapshot
A panel of induced pluripotent stem cells from chimpanzees: a resource for comparative functional genomics
inferredcites →https://doi.org/10.7554/elife.33084openalex-snapshot
Silencing of transposable elements may not be a major driver of regulatory evolution in primate iPSCs
inferredcites →https://doi.org/10.7554/elife.42374openalex-snapshot
A generally conserved response to hypoxia in iPSC-derived cardiomyocytes from humans and chimpanzees
inferredcites →https://doi.org/10.7554/elife.62548openalex-snapshot
Divergence in alternative polyadenylation contributes to gene regulatory differences between humans and chimpanzees
inferredcites →https://doi.org/10.7717/peerj.3668openalex-snapshot
The effects of captive versus wild rearing environments on long bone articular surfaces in common chimpanzees ( Pan troglodytes )

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.2139/ssrn.4755772openalex-extracted
Cross-Validation of Conserved Osteoblast-Specific Enhancers Illuminates Bone Diseases and Early Skeletal Evolution
inferred← citeshttps://doi.org/10.1007/s11222-026-10866-0openalex-snapshot
Non-negative matrix factorization algorithms generally improve topic model fits
inferred← citeshttps://doi.org/10.1016/j.cdev.2024.203924openalex-snapshot
Xenopus tropicalis osteoblast-specific open chromatin regions reveal promoters and enhancers involved in human skeletal phenotypes and shed light on early vertebrate evolution
inferred← citeshttps://doi.org/10.1016/j.gde.2024.102245openalex-snapshot
Advances in skeletal genomics research across tissues and cells
inferred← citeshttps://doi.org/10.1016/j.gde.2025.102374openalex-snapshot
Addressing missing context in regulatory variation across primate evolution
inferred← citeshttps://doi.org/10.1016/j.gde.2025.102413openalex-snapshot
New methodological approaches and insights gained toward understanding the evolved human skeleton
inferred← citeshttps://doi.org/10.1016/j.jmb.2025.168959openalex-snapshot
Evolution of Transcription Factor-containing Superfamilies in Eukaryotes
inferred← citeshttps://doi.org/10.1016/j.xgen.2026.101275openalex-snapshot
CellBouncer, a unified toolkit for single-cell demultiplexing and ambient RNA analysis, reveals hominid mitochondrial incompatibilities
inferred← citeshttps://doi.org/10.1038/d41586-026-02775-zopenalex-snapshot
The human skeleton’s unique adaptations relied on gene regulatory changes
inferred← citeshttps://doi.org/10.1038/s41413-025-00403-6openalex-snapshot
Signaling pathway mechanisms of circadian clock gene Bmal1 regulating bone and cartilage metabolism: a review
inferred← citeshttps://doi.org/10.1038/s41559-022-01889-7openalex-snapshot
Existing methods are effective at measuring natural selection on gene expression
inferred← citeshttps://doi.org/10.1038/s41576-022-00554-wopenalex-snapshot
Current advances in primate genomics: novel approaches for understanding evolution and disease
inferred← citeshttps://doi.org/10.1038/s41586-026-11053-xopenalex-snapshot
The gene-regulatory evolution of the human skeleton
inferred← citeshttps://doi.org/10.1098/rspb.2023.2738openalex-snapshot
A shared pattern of midfacial bone modelling in hominids suggests deep evolutionary roots for human facial morphogenesis
inferred← citeshttps://doi.org/10.1101/2022.07.20.500831openalex-snapshot
Embryoid bodies facilitate comparative analysis of gene expression in humans and chimpanzees across dozens of cell types
inferred← citeshttps://doi.org/10.1101/2023.08.30.555543openalex-snapshot
Architecture and evolutionary conservation of Xenopus tropicalis osteoblast-specific regulatory regions shed light on bone diseases and early skeletal evolution
inferred← citeshttps://doi.org/10.1101/2024.02.11.579844openalex-snapshot
Integrated transcriptomic analysis of human induced pluripotent stem cell-derived osteogenic differentiation reveals a regulatory role of KLF16
inferred← citeshttps://doi.org/10.1186/s12864-025-12400-4openalex-snapshot
Generation and transcriptome profiling of bonobo induced pluripotent stem cells using stealth RNA vectors: a tripartite comparative study with humans and chimpanzees
inferred← citeshttps://doi.org/10.1186/s13059-023-03019-3openalex-snapshot
The relationship between regulatory changes in cis and trans and the evolution of gene expression in humans and chimpanzees
inferred← citeshttps://doi.org/10.1186/s13059-023-03067-9openalex-snapshot
GoM DE: interpreting structure in sequence count data with differential expression analysis allowing for grades of membership
inferred← citeshttps://doi.org/10.12688/f1000research.109602.2openalex-snapshot
Characterizing gene expression in an in vitro biomechanical strain model of joint health
inferred← citeshttps://doi.org/10.3390/genes13020183openalex-snapshot
Evolutionary Genetic Signatures of Selection on Bone-Related Variation within Human and Chimpanzee Populations
inferred← citeshttps://doi.org/10.3390/ijms25147905openalex-snapshot
Primary Cell Culture as a Model System for Evolutionary Molecular Physiology
inferred← citeshttps://doi.org/10.6084/m9.figshare.24124010openalex-snapshot
Additional file 1 of The relationship between regulatory changes in cis and trans and the evolution of gene expression in humans and chimpanzees
inferred← citeshttps://doi.org/10.6084/m9.figshare.24124013openalex-snapshot
Additional file 2 of The relationship between regulatory changes in cis and trans and the evolution of gene expression in humans and chimpanzees
inferred← citeshttps://doi.org/10.6084/m9.figshare.24124016openalex-snapshot
Additional file 3 of The relationship between regulatory changes in cis and trans and the evolution of gene expression in humans and chimpanzees
inferred← citeshttps://doi.org/10.6084/m9.figshare.24124019openalex-snapshot
Additional file 4 of The relationship between regulatory changes in cis and trans and the evolution of gene expression in humans and chimpanzees
inferred← citeshttps://doi.org/10.6084/m9.figshare.24124022openalex-snapshot
Additional file 5 of The relationship between regulatory changes in cis and trans and the evolution of gene expression in humans and chimpanzees
inferred← citeshttps://doi.org/10.7554/elife.106265openalex-snapshot
Integrated transcriptomic analysis of human induced pluripotent stem cell-derived osteogenic differentiation reveals a regulatory role of KLF16
inferred← citeshttps://doi.org/10.7554/elife.106265.1openalex-snapshot
Integrated transcriptomic analysis of human induced pluripotent stem cell-derived osteogenic differentiation reveals a regulatory role of KLF16
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