Carl-Johan Rubin
Researcher at Department of Medical Biochemistry and Microbiology; Genetics and Genomics; Carl-Johan Rubin
- E-mail:
- carl-johan.rubin@imbim.uu.se
- Visiting address:
- BMC
Husargatan 3
752 37 UPPSALA - Postal address:
- Box 582
751 23 UPPSALA
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Short presentation
Carl-Johan has a PhD in Molecular Medicine from the Department of Medical Sciences, Uppsala University. His research is focused on exploring genomes, genetic- and epigenetic variation in relation to trait variation and evolutionary processes. Ongoing projects included experimental work in cells / animal models and computational work / bioinformatics screens.
Keywords
- dna sequencing
- epigenetics
- functional genomics
- genetics
- genome assembly
- genome editing
- population genetics
Publications
Recent publications
- Selection against domestication alleles in introduced rabbit populations (2024)
- Whole-genome selective sweep analyses identifies the region and candidate gene associated with white earlobe color in Mediterranean chickens (2024)
- Complex genetic architecture of the chicken Growth1 QTL region (2024)
- A frame-shift mutation in COMTD1 is associated with impaired pheomelanin pigmentation in chicken (2023)
- Community-wide genome sequencing reveals 30 years of Darwin's finch evolution (2023)
All publications
Articles
- Selection against domestication alleles in introduced rabbit populations (2024)
- Whole-genome selective sweep analyses identifies the region and candidate gene associated with white earlobe color in Mediterranean chickens (2024)
- Complex genetic architecture of the chicken Growth1 QTL region (2024)
- A frame-shift mutation in COMTD1 is associated with impaired pheomelanin pigmentation in chicken (2023)
- Community-wide genome sequencing reveals 30 years of Darwin's finch evolution (2023)
- Long-read whole-genome analysis of human single cells (2023)
- Heterochiasmy and the establishment of gsdf as a novel sex determining gene in Atlantic halibut (2022)
- Spatiotemporal variations in retrovirus-host interactions among Darwin’s finches (2022)
- Rapid adaptive radiation of Darwin's finches depends on ancestral genetic modules (2022)
- The polarity protein Par3 coordinates positively self-renewal and negatively invasiveness in glioblastoma (2021)
- A multispecies BCO2 beak color polymorphism in the Darwin's finch radiation (2021)
- Comparison of anadromous and landlocked Atlantic salmon genomes reveals signatures of parallel and relaxed selection across the Northern Hemisphere (2021)
- The nedd-8 activating enzyme gene underlies genetic resistance to infectious pancreatic necrosis virus in Atlantic salmon (2021)
- The Human Adenovirus 2 Transcriptome (2021)
- Ultralow amounts of DNA from long-term archived serum samples produce high-quality methylomes (2021)
- Whole-genome genotyping and resequencing reveal the association of a deletion in the complex interferon alpha gene cluster with hypothyroidism in dogs (2020)
- Reconstruction of the birth of a male sex chromosome present in Atlantic herring (2020)
- Brain Transcriptomics of Wild and Domestic Rabbits Suggests That Changes in Dopamine Signaling and Ciliary Function Contributed to Evolution of Tameness (2020)
- Regulatory changes in pterin and carotenoid genes underlie balanced color polymorphisms in the wall lizard (2019)
- The horse Y chromosome as an informative marker for tracing sire lines (2019)
- Exploring a Pool-seq-only approach for gaining population genomic insights in nonmodel species (2019)
- Identification and validation of genetic variants predictive of gait in standardbred horses (2019)
- Genetics of adaptation in modern chicken (2019)
- Changes in brain architecture are consistent with altered fear processing in domestic rabbits (2018)
- Asian horses deepen the MSY phylogeny (2018)
- Elevated proportions of deleterious genetic variation in domestic animals and plants (2018)
- A genomic map of clinal variation across the European rabbit hybrid zone (2018)
- Analysis of porcine body size variation using re-sequencing data of miniature and large pigs (2018)
- Whole-genome comparison of endogenous retrovirus segregation across wild and domestic host species populations (2018)
- Dwarfism and Altered Craniofacial Development in Rabbits Is Caused by a 12.1 kb Deletion at the HMGA2 Locus (2017)
- Moderate nucleotide diversity in the Atlantic herring is associated with a low mutation rate (2017)
- The evolutionary history of the DMRT3 'Gait keeper' haplotype (2017)
- Y Chromosome Uncovers the Recent Oriental Origin of Modern Stallions (2017)
- Regulatory mutations in TBX3 disrupt asymmetric hair pigmentation underlying Dun camouflage colour in horses (2016)
- Atlantic salmon populations reveal adaptive divergence of immune related genes - a duplicated genome under selection (2016)
- Second generation sequencing of microRNA in Human Bone Cells treated with Parathyroid Hormone or Dexamethasone (2016)
- Decreased fracture rate, pharmacogenetics and BMD response in 79 Swedish children with osteogenesis imperfecta types I, III and IV treated with Pamidronate (2016)
- The genetic basis for ecological adaptation of the Atlantic herring revealed by genome sequencing (2016)
- Large Deletions at the SHOX Locus in the Pseudoautosomal Region Are Associated with Skeletal Atavism in Shetland Ponies (2016)
- The vgll3 Locus Controls Age at Maturity in Wild and Domesticated Atlantic Salmon (Salmo salar L.) Males (2015)
- Candidate genes underlying heritable differences in reproductive seasonality between wild and domestic rabbits (2015)
- A Genomic Duplication is Associated with Ectopic Eomesodermin Expression in the Embryonic Chicken Comb and Two Duplex-comb Phenotypes (2015)
- Dominant Red Coat Color in Holstein Cattle Is Associated with a Missense Mutation in the Coatomer Protein Complex, Subunit Alpha (COPA) Gene (2015)
- Evolution of Darwin's finches and their beaks revealed by genome sequencing (2015)
- Global miRNA expression and correlation with mRNA levels in primary human bone cells (2015)
- Genetic epidemiology, prevalence, and genotype-phenotype correlations in the Swedish population with osteogenesis imperfecta (2015)
- Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication (2014)
- A cis-Regulatory Mutation of PDSS2 Causes Silky-Feather in Chickens (2014)
- Differentiation and Phylogenetic Relationships in Mycobacterium spp with Special Reference to the RNase P RNA Gene rnpB (2014)
- ZBED6 Modulates the Transcription of Myogenic Genes in Mouse Myoblast Cells (2014)
- The role of pleiotropy and linkage in genes affecting a sexual ornament and bone allocation in the chicken (2014)
- Prehistoric genomes reveal the genetic foundation and cost of horse domestication (2014)
- Allele Dependent Silencing of Collagen Type I Using Small Interfering RNAs Targeting 3'UTR Indels (2013)
- Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse (2013)
- Mutations in DMRT3 affect locomotion in horses and spinal circuit function in mice (2012)
- The Rose-comb Mutation in Chickens Constitutes a Structural Rearrangement Causing Both Altered Comb Morphology and Defective Sperm Motility (2012)
- A Sexual Ornament in Chickens Is Affected by Pleiotropic Alleles at HAO1 and BMP2, Selected during Domestication (2012)
- Population-scale sequencing reveals genetic differentiation due to local adaptation in Atlantic herring (2012)
- Genotype-phenotype correlations and pharmacogenetic studies in 140 Swedish families with osteogenesis imperfecta (2012)
- Heritable genome-wide variation of gene expression and promoter methylation between wild and domesticated chickens (2012)
- Strong signatures of selection in the domestic pig genome (2012)
- Onset of Sexual Maturity in Female Chickens is Genetically Linked to Loci Associated with Fecundity and a Sexual Ornament (2012)
- A Complex Genomic Rearrangement Involving the Endothelin 3 Locus Causes Dermal Hyperpigmentation in the Chicken (2011)
- COL1 C-Propeptide Cleavage Site Mutations Cause High Bone Mass Osteogenesis Imperfecta (2011)
- Allele-specific gene silencing in osteogenesis imperfecta (2011)
- ZBED6 (2010)
- Whole genome resequencing reveals loci under selection during chicken domestication (2010)
- The genetic architecture of domestication in the chicken (2010)
- Heterozygosity for a coding SNP in COL1A2 confers a lower BMD and an increased stroke risk (2009)
- Copy number variation in intron 1 of SOX5 causes the Pea-comb phenotype in chickens (2009)
- Allele dependent silencing of COL1A2 using small interfering RNAs (2008)
- Quantitative Trait Loci for BMD and Bone Strength in an Intercross Between Domestic and Wildtype Chickens (2007)
- Differential gene expression in femoral bone from red junglefowl and domestic chicken, differing for bone phenotypic traits (2007)
- Phylogenetic relationships and species differentiation of 39 Legionella species by sequence determination of the RNase P RNA gene rnpB (2005)
- Comparison of a duplex quantitative real-time PCR assay and the COBAS Amplicor CMV Monitor test for detection of cytomegalovirus (2004)
- Characterization of ompA genotypes by sequence analysis of DNA from all detected cases of Chlamydia trachomatis infections during 1 year of contact tracing in a Swedish County. (2004)
- The role of ZBED6 in transcriptional regulation studied by transcriptome analysis after RNAi in mouse myoblasts
Books
Conferences
