Jiming Jiang
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View article: Predicting cervical cancer DNA methylation from genetic data using multivariate CMMP
Predicting cervical cancer DNA methylation from genetic data using multivariate CMMP Open
Epigenetic modifications link the environment to gene expression and play a crucial role in tumour development. DNA methylation, in particular, is gaining attention in cancer research, including cervical cancer, the focus of this study. Pu…
View article: “End-to-End Chromosome Fusion” as the Main Driver of Descending Dysploidy in Vigna lasiocarpa (Mart. ex Benth.) Verdc. (Leguminosae Juss.)
“End-to-End Chromosome Fusion” as the Main Driver of Descending Dysploidy in Vigna lasiocarpa (Mart. ex Benth.) Verdc. (Leguminosae Juss.) Open
The genus Vigna Savi (Leguminosae Juss.) comprises approximately 150 species, classified into five subgenera, most of which exhibit a diploid chromosome number of 2n = 22. However, the wild species Vigna lasiocarpa (Benth) Verdc. (V. subg.…
View article: A high-quality genome assembly of the tetraploid Teucrium chamaedrys unveils a recent whole-genome duplication and a large biosynthetic gene cluster for diterpenoid metabolism
A high-quality genome assembly of the tetraploid Teucrium chamaedrys unveils a recent whole-genome duplication and a large biosynthetic gene cluster for diterpenoid metabolism Open
View article: Jan and mini‐Jan, a model system for potato functional genomics
Jan and mini‐Jan, a model system for potato functional genomics Open
Summary Potato ( Solanum tuberosum ) is the third‐most important food crop in the world. Although the potato genome has been fully sequenced, functional genomics research of potato lags behind that of other major food crops, largely due to…
View article: Jan and mini-Jan, a model system for potato functional genomics
Jan and mini-Jan, a model system for potato functional genomics Open
Summary Potato ( Solanum tuberosum ) is the third most important food crop in the world. Although the potato genome has been fully sequenced, functional genomics research of potato lags relative to other major food crops due primarily to t…
View article: Generative AI and genetic analyses indicate metformin as a drug repurposing candidate for normal tension glaucoma
Generative AI and genetic analyses indicate metformin as a drug repurposing candidate for normal tension glaucoma Open
Background The normal tension glaucoma (NTG) has limited drug options since current anti-glaucoma medications are mostly designed to decrease intraocular pressure (IOP). The emerging generative artificial intelligence (GAI) may provide an …
View article: <i>Celine</i>, a long interspersed nuclear element retrotransposon, colonizes in the centromeres of poplar chromosomes
<i>Celine</i>, a long interspersed nuclear element retrotransposon, colonizes in the centromeres of poplar chromosomes Open
Centromeres in most multicellular eukaryotes are composed of long arrays of repetitive DNA sequences. Interestingly, several transposable elements, including the well-known long terminal repeat centromeric retrotransposon of maize (CRM), w…
View article: Dynamics of accessible chromatin regions and subgenome dominance in octoploid strawberry
Dynamics of accessible chromatin regions and subgenome dominance in octoploid strawberry Open
Subgenome dominance has been reported in diverse allopolyploid species, where genes from one subgenome are preferentially retained and are more highly expressed than those from other subgenome(s). However, the molecular mechanisms responsi…
View article: Molecular dissection of an intronic enhancer governing cold-induced expression of the vacuolar invertase gene in potato
Molecular dissection of an intronic enhancer governing cold-induced expression of the vacuolar invertase gene in potato Open
Potato (Solanum tuberosum) is the third most important food crop in the world. Potato tubers must be stored at cold temperatures to minimize sprouting and losses due to disease. However, cold temperatures strongly induce the expression of …
View article: Chromosome-scale genome assembly of the ‘Munstead’ cultivar of Lavandula angustifolia
Chromosome-scale genome assembly of the ‘Munstead’ cultivar of Lavandula angustifolia Open
View article: Cold stress induces differential gene expression of retained homeologs in Camelina sativa cv Suneson
Cold stress induces differential gene expression of retained homeologs in Camelina sativa cv Suneson Open
Camelina sativa (L.) Crantz, a member of the Brassicaceae, has potential as a biofuel feedstock which is attributable to the production of fatty acids in its seeds, its fast growth cycle, and low input requirements. While a genome assembly…
View article: Dynamics of <i>cis</i> -regulatory sequences and transcriptional divergence of duplicated genes in soybean
Dynamics of <i>cis</i> -regulatory sequences and transcriptional divergence of duplicated genes in soybean Open
Transcriptional divergence of duplicated genes after whole genome duplication (WGD) has been described in many plant lineages and is often associated with subgenome dominance, a genome-wide mechanism. However, it is unknown what underlies …
View article: Genome-wide chromatin accessibility landscape and dynamics of transcription factor networks during ovule and fiber development in cotton
Genome-wide chromatin accessibility landscape and dynamics of transcription factor networks during ovule and fiber development in cotton Open
Background The development of cotton fiber is regulated by the orchestrated binding of regulatory proteins to cis -regulatory elements associated with developmental genes. The cis–trans regulatory dynamics occurred throughout the course of…
View article: Chromosome-scale genome assembly of the 'Munstead' cultivar of Lavandula angustifolia
Chromosome-scale genome assembly of the 'Munstead' cultivar of Lavandula angustifolia Open
Chromosome-scale genome assembly and genome annotation of the 'Munstead' cultivar of Lavandula angustifolia (Lavender)
View article: Chromosome-scale genome assembly of the 'Munstead' cultivar of Lavandula angustifolia
Chromosome-scale genome assembly of the 'Munstead' cultivar of Lavandula angustifolia Open
Chromosome-scale genome assembly and genome annotation of the 'Munstead' cultivar of Lavandula angustifolia (Lavender)
View article: Classified Mixed Model Projections
Classified Mixed Model Projections Open
In many practical problems, there is interest in the estimation of mixed effect projections for new data that are outside the range of the training data. Examples include predicting extreme small area means for rare populations or making t…
View article: Chromosome-scale genome assembly of the 'Munstead' cultivar of Lavandula angustifolia
Chromosome-scale genome assembly of the 'Munstead' cultivar of Lavandula angustifolia Open
Chromosome-scale genome assembly and genome annotation of the 'Munstead' cultivar of Lavandula angustifolia (Lavender)
View article: Identification and functional validation of super-enhancers in <i>Arabidopsis thaliana</i>
Identification and functional validation of super-enhancers in <i>Arabidopsis thaliana</i> Open
Super-enhancers (SEs) are exceptionally large enhancers and are recognized to play prominent roles in cell identity in mammalian species. We surveyed the genomic regions containing large clusters of accessible chromatin regions (ACRs) mark…
View article: Diploid Potatoes as a Catalyst for Change in the Potato Industry
Diploid Potatoes as a Catalyst for Change in the Potato Industry Open
In response to increasing interest in diploid potato ( Solanum tuberosum ) breeding and the production of diploid inbred hybrid potato varieties, the Breeding and Genetics section of the Potato Association of America (PAA) organized a symp…
View article: Chromosome-scale genome assemblies and annotations for Poales species <i>Carex cristatella</i>, <i>Carex scoparia</i>, <i>Juncus effusus</i>, and <i>Juncus inflexus</i>
Chromosome-scale genome assemblies and annotations for Poales species <i>Carex cristatella</i>, <i>Carex scoparia</i>, <i>Juncus effusus</i>, and <i>Juncus inflexus</i> Open
The majority of sequenced genomes in the monocots are from species belonging to Poaceae, which include many commercially important crops. Here, we expand the number of sequenced genomes from the monocots to include the genomes of 4 related…
View article: Machine learning reveals conserved chromatin patterns determining meiotic recombination sites in plants
Machine learning reveals conserved chromatin patterns determining meiotic recombination sites in plants Open
Distribution of meiotic recombination events in plants has been associated with local chromatin and DNA characteristics, chromosome landmark proximity, and other features 1-7 . However, relative importance of these characteristics is uncle…
View article: Exploration of global faba bean germplasm for agronomic and nitrogen fixation traits
Exploration of global faba bean germplasm for agronomic and nitrogen fixation traits Open
The growing regional and global interests in legume crops for cover cropping and sustainable agriculture has provided new opportunities for growers to incorporate faba bean ( Vicia faba L.) into their production systems. Much of faba bean'…
View article: Pep_pel_assembly_MSU_V2_2021
Pep_pel_assembly_MSU_V2_2021 Open
Genome-guided transcriptome assembly for Peperomia pellucida. Derived from whole seedlings, young, and mature leaves.
View article: Pep_pel_assembly_MSU_V2_2021
Pep_pel_assembly_MSU_V2_2021 Open
Genome-guided transcriptome assembly for Peperomia pellucida. Derived from whole seedlings, young, and mature leaves.
View article: Updates on gene editing and its applications
Updates on gene editing and its applications Open
View article: Phased, chromosome-scale genome assemblies of tetraploid potato reveal a complex genome, transcriptome, and predicted proteome landscape underpinning genetic diversity
Phased, chromosome-scale genome assemblies of tetraploid potato reveal a complex genome, transcriptome, and predicted proteome landscape underpinning genetic diversity Open
View article: Chromosome‐specific painting unveils chromosomal fusions and distinct allopolyploid species in the <i>Saccharum</i> complex
Chromosome‐specific painting unveils chromosomal fusions and distinct allopolyploid species in the <i>Saccharum</i> complex Open
Summary Karyotypes provide key cytogenetic information on the phylogenetic relationships and evolutionary origins in related eukaryotic species. Despite our knowledge of the chromosome numbers of sugarcane and its wild relatives, the chrom…
View article: Salubrinal Regulates the Apoptosis of Adrenocortical Carcinoma Cells via the PERK/eIF2α/ATF4 Signaling Pathway
Salubrinal Regulates the Apoptosis of Adrenocortical Carcinoma Cells via the PERK/eIF2α/ATF4 Signaling Pathway Open
The protein-kinase-R- (PKR-) like endoplasmic reticulum kinase (PERK) signaling pathway is a well-known promoter of cell apoptosis. In this study, we aimed to determine whether salubrinal (Sal), a selective activator of eukaryotic translat…
View article: LD-CNV: rapid and simple discovery of chromosomal translocations using linkage disequilibrium between copy number variable loci
LD-CNV: rapid and simple discovery of chromosomal translocations using linkage disequilibrium between copy number variable loci Open
Large-scale structural variations, such as chromosomal translocations, can have profound effects on fitness and phenotype, but are difficult to identify and characterize. Here, we describe a simple and effective method aimed at identifying…
View article: Megabase-scale presence-absence variation with Tripsacum origin was under selection during maize domestication and adaptation
Megabase-scale presence-absence variation with Tripsacum origin was under selection during maize domestication and adaptation Open