Articles tagged with Rna Sequencing
A study found that doxycycline post-exposure prophylaxis (doxy-PEP) did not significantly alter the overall composition of gut bacteria in individuals who took it for six months. However, the researchers noted signs of resistance building against tetracycline, a class of antibiotics to which doxycycline belongs.
A new study found that over a dozen bacterial species in the oral microbiome are linked to a 30-50% increased chance of developing head and neck squamous cell carcinoma. The research analyzed data from 159,840 Americans and identified key bacteria that may contribute to the disease.
Researchers developed SINGULAR, a cell rejuvenation atlas that offers a comprehensive systems biology analysis of diverse rejuvenation strategies across multiple organs at single-cell resolution. The study identified master regulators and uncovered common targets across immune cells.
A new method, scAMF, reduces noise in single-cell RNA sequencing data while preserving crucial biological information. This enables more accurate cell type characterization and clustering. The framework also lays the foundation for constructing high-resolution cell atlases.
Researchers found that the frequency of activated TREG cells remained elevated during treatment and continued to be high even after the virus was eliminated. Inflammatory features, such as increased TNF signaling, were sustained in TREG cells, indicating long-term immune system changes induced by the chronic infection.
Researchers analyzed virus populations from a chronically infected patient and found that human-derived RNA fragments helped the virus replicate better in cell culture. The incorporation of host RNA into the viral genome may serve as a biomarker for early detection of chronic infections.
The study identified 99 RNA isoforms that were either increased or decreased in Alzheimer's brains, even when overall gene activity didn't change. This discovery shows the importance of understanding isoforms and their unique functions in a gene along with their roles in human health and disease.
A team of researchers from Tokyo Institute of Technology has developed a new type of computational RNA droplet that can perform logical AND operations using microRNA sequences. These programmable droplets have the potential to be used in various applications, including biomolecular sensing and artificial cells.
A team of researchers from Xi'an Jiaotong-Liverpool University has engineered a short sequence of artificial DNA to target the mutant protein p53-R175H, linked to lung, colorectal, and breast cancers. The new molecule, dp53m, inhibits cancer cell growth and increases sensitivity to chemotherapy agent cisplatin.
A team at Osaka University uses novel RNA sequencing techniques to reveal the molecular basis for sexual dimorphism in Daphnia, a species of water flea that can change its form and behavior despite being genetically identical. The study identifies genes that switch which isoforms are expressed in a sex-dependent manner.
Researchers developed a method to quantify mRNA transcription and degradation rates within individual cell types, uncovering varied regulatory rates across genes. The study provides novel insights into how pluripotent cells adopt specialized identities through gene expression.
Researchers investigate senescence phenotypes of human corneal endothelial cells upon treatment with ultraviolet (UV)-A. Cells exhibit enlarged morphology, increased β-galactosidase activity and decreased proliferation. UV-A-induced senescent cells show similar gene expression profiles to ionizing radiation (IR)-induced cells.
The new 'scLENS' tool overcomes challenges in single-cell transcriptomics by automatically differentiating signals from noise using Random Matrix Theory and Signal robustness test. This innovation significantly improves analysis accuracy and efficiency, enabling researchers to extract biological signals conveniently and automatically.
Researchers at Karolinska Institutet developed a Single Cell Atlas (SCA) platform to profile human biology through multi-omics technologies. The extensive collection of data provides unique insights into individual cell properties and tissue interactions.
The study provides a detailed understanding of the progression of sarcopenia and frailty in older adults. Researchers identified key elements that predict susceptibility to sarcopenia, including changes in type 2 muscle fibers and cell metabolism.
A team of researchers used a rapid metagenomics technique to sequence viral RNA and DNA from blood-engorged mosquitoes collected in São Paulo city, identifying vectors, viruses, and hosts. The protocol has the potential to extend our understanding of insect genetic diversity and arbovirus transmission.
A comprehensive atlas of ageing human muscle reveals genetic and cellular processes behind muscle deterioration, including new cell populations that may explain age-related differences. The study also identifies compensatory mechanisms to counteract ageing, offering avenues for future therapies.
A new study reveals that different chromosomes have separate end-specific telomere-length distributions, challenging the scientific consensus. Researchers found that most telomeres were either the shortest or longest across all individuals, suggesting that specific chromosome ends may be the first to trigger stem-cell failure.
A new study reveals that a specific RNA chemical modification, m6A, is crucial for HIV-1 virus replication and production. The research found that targeting this modification could lead to the development of new treatments for HIV infection.
Researchers have discovered a virus that infects the fungus Batrachochytrium dendrobatidis, which causes heart failure in frogs and toads. The virus could be engineered to control the fungal disease and potentially save amphibian species.
Researchers sequenced RNA transcripts from 18 primate brains to map every expressed gene, revealing remarkable variation in humans and chimps compared to other primates. The study identifies specific genes for further research and sheds light on human neurodegenerative disorders.
Researchers have identified a subset of T-cells that acts like stem cells and continuously generates effector T-cells that attack transplanted organs. Targeting the transcription factor IRF4 may lead to innovative therapies for patients with chronic infections, cancers, autoimmune diseases and transplanted organs.
Researchers have developed a technique to account for global changes in transcription, revealing new insights into how plants respond to environmental stimuli. By using artificial spike-ins, they found that temperature changes at different times of day affect gene expression more significantly than previously thought.
Researchers used single-cell RNA sequencing to analyze the effects of APC treatment on AD transgenic mice, revealing alterations in glial cells and upregulated genes associated with AD progression. APC treatment downregulates inflammatory processes and recovers nervous system functions.
Recent advances in single-cell RNA sequencing have streamlined processes and resolved protoplast isolation challenges. Plant systems biology demands innovative approaches to unravel the secrets hidden within plant cells.
Researchers developed an AI framework that combines dimension reduction techniques with a new clustering algorithm to quickly identify groups of viral genomes at risk. This enables proactive response measures like tailored vaccine development, potentially eliminating emerging variants before they spread.
Researchers define a 'core senescent profile' in human colon fibroblasts, revealing potential driver proteins involved in CRC. The study's findings provide insights into therapies for improving overall health and preventing CRC.
A new study found that MERRICAL, a long non-coding RNA sequence, is involved in recruiting macrophages to the arterial wall and promotes atherosclerosis progression. Reducing MERRICAL expression levels using inhibitors significantly reduced atherosclerosis and aortic lesion formation.
A team of Rice University researchers has developed a platform for integrating DNA and RNA data from single-cell sequencing with greater speed and precision. The method, MaCroDNA, relies on a classical algorithm to identify matching pairs of data and outperformed state-of-the-art technologies in accuracy measurements.
A recent study by Pusan National University scientists discovered the crucial role of PKM gene and EPHA2 pathway in HNSCC development. The research highlights the importance of HPV infection status in shaping the tumor microenvironment, enabling precision medicine for targeted treatment.
A study published in Nature Cardiovascular Research reveals that a dynamic synergy between cell types facilitates cardiac renewal, challenging existing paradigms. Targeting the microenvironment rather than specific cell types is key to healing injured hearts.
A pilot study proposes a promising global genomic assay for diagnosing molecular subtypes in pediatric B-ALL, leading to more accurate diagnosis and targeted treatment options. RNA sequencing analysis accurately identified subtypes in all known cases and determined genetic subtype in 79% of previously unknown cases.
Researchers have found that antibody sequences contain an unusual number of codons without corresponding tRNAs, which can be bridged by the inosine wobble modification. This modification allows for more efficient production of antibodies, with implications for vaccine efficacy and rationally designed vaccines.
Researchers at Tokyo Medical and Dental University characterize myeloid/natural killer (NK) cell precursor acute leukemia (MNKPL) using multiomics approaches, revealing distinct molecular features. This work provides crucial details for accurate diagnoses and therapeutic decisions.
Scientists have mapped neuroblastoma tumors at the cell level and discovered a brake on the immune system that can be blocked with existing immunotherapy. A new combination treatment targeting TIGIT and PD-L1 is being developed, showing promising results in lab experiments.
Researchers at Indiana University have completed the final gaps in the Arabidopsis genome sequence, revealing how ribosomal RNA genes are organized and regulated. The study found that one NOR is nearly completely silenced in growing plants, while the other accounts for almost all ribosomal RNA gene activity in its central region.
Researchers investigated mechanisms of NK cell-mediated killing in various types of blood cancers, uncovering genes involved in sensitivity and resistance to NK cell therapies. The study aims to develop new personalized immunotherapies for improved cancer treatment outcomes.
Researchers developed GraphNovo, a program that provides accurate understanding of peptide sequences in cells, improving immunotherapy for unique cases. The AI model enhances de novo peptide sequencing accuracy, filling gaps with precise mass data.
Researchers identified genetic mutations in peas that enable high iron accumulation, opening doors for biofortification of staple crops like wheat and barley. This breakthrough has the potential to reduce iron deficiency anaemia globally.
The study demonstrates that concurrent DNA and RNA sequencing improves the detection of novel variants in individuals undergoing hereditary cancer testing, expanding identification of those with hereditary cancer predisposition. This advancement enables personalized therapeutics and surveillance for these individuals.
Researchers identify immune cells responsible for some hard-to-treat asthma cases, particularly in men who develop asthma later in life. These cells can cause severe inflammatory responses and do not respond to treatment.
Researchers identify cytotoxic CD4+ tissue-resident memory T cells as potential asthma triggers, particularly in older male patients. These cells can cause severe inflammatory responses and make treatment challenging.
Researchers will study the spread of SARS-CoV-2 among deer, including captive and wild populations, as well as its relationship with humans and the environment. The project aims to understand disease ecology in whole systems and inform better management practices for deer producers.
Researchers discovered BMAL1 is significantly upregulated in senescent cells and modulates the senescence program through AP-1. The study highlights a previously unappreciated role of BMAL1 in regulating cellular senescence and circadian clock components.
Researchers identified abnormal keratin expression patterns in senescent ocular surface cells, which may contribute to severe ocular surface diseases. Gene expression profiles showed substantial differences between senescent and non-senescent cells, highlighting their potential role in pathology.
Researchers discovered Leishmania parasites in blood-related stem cells of chronically infected mice, challenging the textbook understanding of the disease. The finding may lead to new treatment options and improve our understanding of why some people develop visceral leishmaniasis despite having immune disorders.
A Boston University-led study identified genetic signatures of TB-susceptible and TB-resistant macrophages, leading to a new approach to tweak the immune system to fight the disease. The research could lead to therapies targeting host immunity to tuberculosis.
Research finds that immune cells in older adults are similar to those in newborns and children, but less effective at recognizing infected cells. The study, published in Nature Immunology, suggests that tailored vaccines and therapies could be developed for different age groups based on the unique characteristics of killer T cells.
Researchers have identified novel therapeutic targets using single-cell and spatially resolved omics, including cannabidiol for colorectal tumors, Cux1 as a potential target for dry skin diseases, and microglia communication for Alzheimer's disease. These studies offer hope for future treatments.
Microglial cells age differently in male and female mice, with female microglia displaying a 'middle-aged' phenotype and male microglia switching suddenly to an aged phenotype. The researchers identified key genes and mechanisms contributing to this aging process, including the role of aged-like microglia in cognitive decline.
A UMass Amherst neuroscientist is mapping the brain of a sea slug to study how neurons are added to functional neural circuits, shedding light on how this process contributes to neurological conditions. The project aims to provide an unprecedented look at brain development and potentially inform human brain development.
The study validates a comprehensive genomic profiling assay, NeXT Dx, which detects single nucleotide variants, indels, copy number alterations, and gene fusions. The assay demonstrates high analytic sensitivities and specificity, providing personalized recommendations critical to clinical decision-making.
HSE biologists explain how coronavirus evolves from Wuhan variant to Omicron, highlighting the crucial role of microRNA molecules in the process. The study found that substitutions in the viral genome disrupted microRNA binding regions, leading to the emergence of more contagious and resilient strains.
Researchers developed SQUID, a computational approach to predict single-cell RNA composition from bulk analysis data. This allows for identification of chemoresistant cells and targeted therapy selection, improving treatment outcomes for patients.
Researchers at Children's Hospital of Philadelphia developed TEQUILA-seq, a cost-effective technology for targeted long-read RNA sequencing. This innovation enables accurate accounting of all RNA molecules emanating from a single gene, crucial for understanding diseases like cancer.
Researchers at La Jolla Institute for Immunology and Augusta University have identified a link between
Researchers at Leipzig University have developed a new method to visualize the activity of CRISPR-Cas protein complexes, allowing for precise observation of gene recognition. The study reveals that base pairing with RNA is not energetically advantageous, but becomes stable only after the entire sequence is recognized.
BioAutoMATED is an all-in-one AutoML platform designed for biologists, enabling easy analysis and interpretation of biological sequences. The platform uses three existing AutoML tools to generate models that can predict biological functions from sequence information.
A new method called 5PSeq has been developed to quickly assess bacterial response to antibiotics, with potential implications for treating antibiotic-resistant infections. The method measures mRNA translation and decay, revealing how bacteria interact with environmental factors and stressors.
Researchers developed a computational platform called IRIS to discover tumor antigens from alternative RNA splicing, expanding cancer immunotherapy targets. Hundreds of predicted TCR targets were found to be presented by human leukocyte antigen molecules.