Archana N. Raja
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View article: The Long Non-coding RNA Landscape of Endurance Exercise Training
The Long Non-coding RNA Landscape of Endurance Exercise Training Open
SUMMARY Long non-coding RNAs (lncRNAs) regulate multiple cellular processes. However, knowledge of the responses and regulatory functions of lncRNAs in physical exercise and training remains limited. As part of the Molecular Transducers of…
View article: The Influence of Shift Work Compensation and Job Satisfaction on Employee Work Productivity at SPBU in Palopo City
The Influence of Shift Work Compensation and Job Satisfaction on Employee Work Productivity at SPBU in Palopo City Open
This study aims to determine and analyze the influence of shift work compensation and job satisfaction on work productivity at two gas stations in Palopo City, namely SPBU PT Josila Trimakmur and SPBU Dangerakko. The background of this res…
View article: Integration of transcriptomics and long-read genomics prioritizes structural variants in rare disease
Integration of transcriptomics and long-read genomics prioritizes structural variants in rare disease Open
Rare structural variants (SVs)—insertions, deletions, and complex rearrangements—can cause Mendelian disease, yet they remain difficult to accurately detect and interpret. We sequenced and analyzed Oxford Nanopore Technologies long-read ge…
View article: IMPLEMENTATION OF E-SERVICE QUALITY METHOD AND IMPORTANCE PERFORMANCE ANALYSIS (IPA) FOR SERVICE QUALITY ANALYSIS ON WATTPAD APPLICATION
IMPLEMENTATION OF E-SERVICE QUALITY METHOD AND IMPORTANCE PERFORMANCE ANALYSIS (IPA) FOR SERVICE QUALITY ANALYSIS ON WATTPAD APPLICATION Open
View article: The Importance of Advertising in Business: A Descriptive Study
The Importance of Advertising in Business: A Descriptive Study Open
View article: The mitochondrial multi-omic response to exercise training across rat tissues
The mitochondrial multi-omic response to exercise training across rat tissues Open
Mitochondria have diverse functions critical to whole-body metabolic homeostasis. Endurance training alters mitochondrial activity, but systematic characterization of these adaptations is lacking. Here, the Molecular Transducers of Physica…
View article: Molecular adaptations in response to exercise training are associated with tissue-specific transcriptomic and epigenomic signatures
Molecular adaptations in response to exercise training are associated with tissue-specific transcriptomic and epigenomic signatures Open
Regular exercise has many physical and brain health benefits, yet the molecular mechanisms mediating exercise effects across tissues remain poorly understood. Here we analyzed 400 high-quality DNA methylation, ATAC-seq, and RNA-seq dataset…
View article: Temporal dynamics of the multi-omic response to endurance exercise training
Temporal dynamics of the multi-omic response to endurance exercise training Open
View article: Protocol for high-throughput DNA methylation profiling in rat tissues using automated reduced representation bisulfite sequencing
Protocol for high-throughput DNA methylation profiling in rat tissues using automated reduced representation bisulfite sequencing Open
View article: Clinical application of Complete Long Read genome sequencing identifies a 16kb intragenic duplication in EHMT1 in a patient with suspected Kleefstra syndrome
Clinical application of Complete Long Read genome sequencing identifies a 16kb intragenic duplication in EHMT1 in a patient with suspected Kleefstra syndrome Open
Long read sequencing offers benefits for the detection of structural variation in Mendelian disease. Here, we applied a new technology that generates contiguous long reads via tagmentation and sequencing by synthesis to a small cohort of p…
View article: Integration of transcriptomics and long-read genomics prioritizes structural variants in rare disease
Integration of transcriptomics and long-read genomics prioritizes structural variants in rare disease Open
Rare structural variants (SVs) – insertions, deletions, and complex rearrangements – can cause Mendelian disease, yet they remain difficult to accurately detect and interpret. We sequenced and analyzed Oxford Nanopore long-read genomes of …
View article: The mitochondrial multi-omic response to exercise training across tissues
The mitochondrial multi-omic response to exercise training across tissues Open
Mitochondria are adaptable organelles with diverse cellular functions critical to whole-body metabolic homeostasis. While chronic endurance exercise training is known to alter mitochondrial activity, these adaptations have not yet been sys…
View article: Multi-omic identification of key transcriptional regulatory programs during endurance exercise training in rats
Multi-omic identification of key transcriptional regulatory programs during endurance exercise training in rats Open
Transcription factors (TFs) play a key role in regulating gene expression. We conducted an integrated analysis of chromatin accessibility, DNA methylation, mRNA expression, protein abundance and phosphorylation across eight tissues in fift…
View article: Temporal dynamics of the multi-omic response to endurance exercise training across tissues
Temporal dynamics of the multi-omic response to endurance exercise training across tissues Open
Regular exercise promotes whole-body health and prevents disease, yet the underlying molecular mechanisms throughout a whole organism are incompletely understood. Here, the Molecular Transducers of Physical Activity Consortium (MoTrPAC) pr…
View article: Deconvoluting complex correlates of COVID-19 severity with a multi-omic pandemic tracking strategy
Deconvoluting complex correlates of COVID-19 severity with a multi-omic pandemic tracking strategy Open
View article: Deconvoluting complex correlates of COVID19 severity with local ancestry inference and viral phylodynamics: Results of a multiomic pandemic tracking strategy
Deconvoluting complex correlates of COVID19 severity with local ancestry inference and viral phylodynamics: Results of a multiomic pandemic tracking strategy Open
The SARS-CoV-2 pandemic has differentially impacted populations of varied race, ethnicity and socioeconomic status. Admixture mapping and local ancestry inference represent powerful tools to examine genetic risk within multi-ancestry genom…
View article: Understanding the structural and functional details of Rv3716c, a hypothetical protein from <i>Mycobacterium tuberculosis</i>
Understanding the structural and functional details of Rv3716c, a hypothetical protein from <i>Mycobacterium tuberculosis</i> Open
A large number of enzymes depend on the ubiquitous cofactor pyridoxal 5' phosphate (PLP) for their activity.Pyridoxal kinase (PLK) is the key enzyme involved in the synthesis of PLP from the three forms of vitamin B6 via the salvage pathwa…
View article: Mono- and bi-allelic protein truncating variants in alpha-actinin 2 cause cardiomyopathy through distinct mechanisms
Mono- and bi-allelic protein truncating variants in alpha-actinin 2 cause cardiomyopathy through distinct mechanisms Open
Alpha-actinin 2 (ACTN2) anchors actin within cardiac sarcomeres. The mechanisms linking ACTN2 mutations to myocardial disease phenotypes are unknown. Here, we characterize patients with novel ACTN2 mutations to reveal insights into the phy…
View article: High-throughput SARS-CoV-2 and host genome sequencing from single nasopharyngeal swabs
High-throughput SARS-CoV-2 and host genome sequencing from single nasopharyngeal swabs Open
During COVID19 and other viral pandemics, rapid generation of host and pathogen genomic data is critical to tracking infection and informing therapies. There is an urgent need for efficient approaches to this data generation at scale. We h…
View article: High-resolution comparative analysis of great ape genomes
High-resolution comparative analysis of great ape genomes Open
A spotlight on great ape genomes Most nonhuman primate genomes generated to date have been “humanized” owing to their many gaps and the reliance on guidance by the reference human genome. To remove this humanizing effect, Kronenberg et al.…
View article: Genomic Patterns of De Novo Mutation in Simplex Autism
Genomic Patterns of De Novo Mutation in Simplex Autism Open
View article: The evolution and population diversity of human-specific segmental duplications
The evolution and population diversity of human-specific segmental duplications Open
View article: Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region
Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region Open
Recurrent rearrangements of Chromosome 8p23.1 are associated with congenital heart defects and developmental delay. The complexity of this region has led to inconsistencies in the current reference assembly, confounding studies of genetic …
View article: High-Quality Assembly of an Individual of Yoruban Descent
High-Quality Assembly of an Individual of Yoruban Descent Open
De novo assembly of human genomes is now a tractable effort due in part to advances in sequencing and mapping technologies. We use PacBio single-molecule, real-time (SMRT) sequencing and BioNano genomic maps to construct the first de novo …
View article: Emergence of a Homo sapiens-specific gene family and chromosome 16p11.2 CNV susceptibility
Emergence of a Homo sapiens-specific gene family and chromosome 16p11.2 CNV susceptibility Open
View article: Long-read sequence assembly of the gorilla genome
Long-read sequence assembly of the gorilla genome Open
Improving on the gorilla genome Access to complete, high-quality genomes of nonhuman primates will also help us understand human biology. Gordon et al. used long-read sequencing technology to improve genome data on our close relative the g…
View article: Genome Sequencing of Autism-Affected Families Reveals Disruption of Putative Noncoding Regulatory DNA
Genome Sequencing of Autism-Affected Families Reveals Disruption of Putative Noncoding Regulatory DNA Open
View article: Divergent target recognition by coexpressed 5′-isomiRs of miR-142-3p and selective viral mimicry
Divergent target recognition by coexpressed 5′-isomiRs of miR-142-3p and selective viral mimicry Open
Sequence heterogeneity at the ends of mature microRNAs (miRNAs) is well documented, but its effects on miRNA function are largely unexplored. Here we studied the impact of miRNA 5′-heterogeneity, which affects the seed region critical for …
View article: Excess of rare, inherited truncating mutations in autism
Excess of rare, inherited truncating mutations in autism Open