Articles tagged with Rna Sequencing
Researchers identified two opposing patterns of brain gene activity in mice carrying autism-risk mutations, which vary by sex and respond differently to experimental drugs. The patterns, which are shared across multiple analyses, suggest that many different genetic mutations converge into a limited number of molecular brain states.
Researchers have created a detailed map of childhood Crohn's disease before and after treatment, identifying specific cell signatures that predict disease severity and treatment outcomes. The study suggests that anti-TNF therapy may push the pediatric cell ecosystem towards more resistant disease.
Researchers identify HLA-E as a key regulator of metastasis-initiating hepatocyte states, linked to IFN-γ–JAK–STAT3 pathway. Chronic immune pressure contributes to metastasis initiation in HCC, suggesting a new target for limiting immune-driven metastasis.
A new study develops methods for clinicians to assess patient risk and builds an understanding of HFpEF's mechanisms, which could lead to new treatments. Researchers found potential mechanistic and molecular changes contributing to the condition.
A new method pioneered by Vanderbilt University's Ken Lau lab is poised to make previously inaccessible medical knowledge that has been locked away in old patient samples newly accessible to scientists. The method recovers whole cells instead of only their nuclei, capturing more biological information contained within each cell.
Circulating circRNAs show high cell-type and tissue specificity, making them ideal for non-invasive cancer management. They can be detected in multiple body fluids and reflect treatment response, positioning them as functional drivers of therapy resistance.
Research identifies SPP1+ macrophages as key drivers of intervertebral disc degeneration, leading to matrix destruction and disc deterioration. Targeting the SPP1 signaling pathway may offer an effective strategy for mitigating or reversing spinal degeneration.
A new graph-based deep learning framework, ZINB-GRAN, integrates global network structure learning with biologically informed statistical modeling to reconstruct accurate gene regulatory networks from single-cell RNA sequencing data. The method addresses major challenges in single-cell GRN inference, including data sparsity and technic...
Researchers have identified 18 distinct cell type clusters in the inflorescence meristem that generate a plant's above-ground organs. The study provides new insights into how stem cells make the transition from an undifferentiated state to specialized cell types.
Researchers mapped gene activity changes across over 1 million gut cells from patients with Crohn's and healthy controls, identifying key drivers of inflammation and potential therapeutic targets. The study also revealed a 'molecular scar' in the gut lining that leaves lasting marks on stem cells.
Researchers have discovered a previously underappreciated mechanism that helps immune cells respond rapidly to infections by altering RNA splicing. This study provides new insights into immune-mediated diseases such as rheumatoid arthritis and lupus, and may lead to more targeted therapies.
Researchers developed PANDORA-seq to detect sncRNAs in human sperm, revealing strong correlations between specific molecular species and clinical indicators of sperm quality. The study established novel molecular frameworks for diagnosing male infertility.
Researchers at St. Jude Children's Research Hospital discovered that cells use two pathways to silence invading transposons: RNA interference and heterochromatin. These pathways are triggered by abnormal RNA patterns produced by the transposon, allowing cells to detect and defend against invasive DNA sequences.
Researchers from The University of Osaka discovered that only a small proportion of CD8 T cells undergo sustained clonal expansion in multiple myeloma immunotherapy, leading to the strongest anti-tumor response. Early immune activity could help predict which cells will become effective cancer fighters.
Researchers developed a novel algorithm, FUSILLI, to detect gene fusions in B-cell acute lymphoblastic leukemia (B-ALL) using long-read RNA sequencing data. The tool achieves higher diagnostic yield from low-coverage, low-cost sequencing, enabling faster and more accurate diagnosis of pediatric cancer.
Researchers at UT MD Anderson Cancer Center have made significant advancements in cancer care, including the development of a targeted RAS inhibitor therapy for pancreatic cancer and a biomarker of chemotherapy resistance in relapsed lung cancer. The studies also explore the tumor microenvironment of triple-negative breast cancer and i...
Researchers developed a 13-gene panel and machine learning model to predict TNBC patient responses to chemotherapy, identifying macrophage subtypes associated with treatment outcomes. The study provides novel insights into the gene-expression programs and tumor microenvironment of early-stage triple-negative breast cancer.
A new liquid biopsy method has been developed to predict the response to immunotherapy in high-risk breast cancers. The study found that repeated blood sampling can assess and predict the evolving antitumor immune response to therapy, offering a potential tool for guiding immunotherapy decision-making.
A novel circular RNA replicon was identified in a high-temperature hot spring ecosystem, showing profound divergence from previously known circular RNAs. The discovery reveals diverse self-replicating RNAs exist even in extreme environments, broadening the ecological scope of RNA-based replication systems.
A team of researchers from Kyoto University has identified multiple types of stromal and secretory cells in the larynx, revealing new insights into vocal fold regeneration. The study's findings provide potential stem cells for treating vocal cord dysfunction and other voice disorders.
Researchers have developed a new single-cell technology called CIPHER-seq that captures the timing of cytokine activity with greater accuracy. This allows for a clearer view of immune cell behavior and strengthens the foundation for understanding cancer, inflammation, and treatment resistance.
Research conducted by San Diego Zoo Wildlife Alliance and Save the Elephants found that elephants' gut microbiomes shifted significantly when sharing habitat with livestock. Microbes commonly found in livestock became more abundant, while beneficial microbes decreased.
Scientists have identified a new cell type and discovered that many normal-looking prostate cells harbor cancer-related changes. The study's findings could lead to new risk factors, earlier detection methods, and more targeted therapies for patients at high risk of aggressive disease.
Researchers have uncovered unusual clustering of endothelial cells around immune cells, signaling the start of excessive collagen production and scarring. This discovery could lead to new treatments for fibrosis, a common complication in Crohn's Disease affecting 10-20% of patients.
New research reveals that tumor cells in supratentorial ependymomas cluster into distinct neighborhoods, each with a specific role, such as proliferating or invading. Understanding these cell subtypes could help predict treatment response and inform targeted therapies for this aggressive childhood brain cancer.
Researchers developed an integrative analysis of single-cell sequencing and spatial mapping to reveal novel mechanisms driving breast cancer metastasis. The study identifies key drivers of metastasis, including early disseminated cancer cells with enhanced invasive capabilities.
A research team has developed a 'SUPER' platform that utilizes synthetic small RNAs as add-on controllers for genetic switches. This technology enhances the performance and stability of gene regulatory devices by addressing the issue of 'leakage', where genes continue to express at low levels even in the 'OFF' state.
A new study by the University of Tennessee shows that virus infection of cyanobacteria releases nutrients, fueling microbial growth and contributing to enhanced oxygen levels in the ocean. The findings suggest a direct link between viral activity and ecosystem functioning below the surface.
A new study maps the impact of stressors during pregnancy on the developing fetal brain, revealing a cell atlas and identifying key immune pathways. The research sheds light on how maternal gut-immune disruptions can shape neurodevelopmental disorders in children.
Researchers have identified two proteins that allow cancer cells to evade destruction by brain immune cells, known as microglia. By removing these proteins, microglia play a key role in eliminating cancer cells during the early stage of their arrival in the brain.
A breakthrough study from Georgia State University links brain biology to behavior, revealing the long-sought bridge between micro- and macro-level brain organization. The research team uncovered a detailed biological map connecting different levels of the brain, shedding light on how molecular features influence cognition.
The Virtual Cell Pharmacology Initiative (VCPI) aims to build the first standardized framework for virtual cell modeling in drug discovery. Ginkgo Datapoints is offering free high-throughput RNA profiling via its platform, generating over 12 billion data points and aiming to test at least 100,000 compounds.
A recent study published in Nature Communications reveals that the mechanical properties of the developing brain play a significant role in synapse formation and electrical signal emergence. The researchers found that softer regions exhibit higher synapse densities, while stiffer regions show lower densities.
Researchers developed CellWhisperer, an AI method and software tool that links gene expression with descriptive text across millions of biological samples. It provides a virtual AI-based colleague to support biologists in their research, making biomedical data exploration easier and more exciting.
Researchers discovered that folate receptor beta is widely expressed in various pediatric and adolescent solid tumors, making it a promising target for improving tumor surgery accuracy. Pafolacianine, a next-generation dye targeting folate receptors, shows promise as a tumor-agnostic imaging strategy for pediatric cancer surgery.
A key molecular player, RfaH, has been identified as a protective shield for bacterial genes, enabling them to survive the hostile environment inside the body. The protein ensures transcription runs to completion, making it an anti-terminator that prevents premature termination of gene expression.
Researchers at Cold Spring Harbor Laboratory have mapped two known stem cell regulators across thousands of maize and Arabidopsis shoot cells. This discovery reveals new stem cell regulators in both species and links some to size variations in maize.
Researchers used zebrafish with a mutation in the ube3a gene to investigate how environmental factors affect social behavior in individuals with autism spectrum disorders. The study found that environmental adjustments could hold therapeutic potential for ASD-related behavioral challenges.
A study by BSC-CNS analyzed molecular data from over 4,000 patients and 45 diseases using a newly developed computational method. The results show that 64% of medically known connections are related by similarities in gene expression, providing clues about the biological mechanisms linking them.
HTGAnalyzer is an automated tool simplifying complex transcriptomic workflows, enabling clinicians without bioinformatics expertise to perform essential analyses in precision medicine. The tool has been validated using multiple datasets and identified differentially expressed genes linked to cancer diagnosis, treatment, and prognosis.
The study uses Rapid Precision Run-On Sequencing (rPRO-seq) to uncover molecular drivers of cellular differentiation, offering a paradigm shift in understanding regenerative therapies. The technique allows doctors to analyze patients' disease states and treatment response in real-time.
Researchers at Salk Institute launched a machine learning framework called ShortStop to explore overlooked DNA regions and discover microproteins with potential roles in disease. The tool identified 210 new microprotein candidates in lung cancer data, including one validated target for therapeutic treatment.
Researchers from University of Zurich and Basel decode historical specimen to understand how 1918-1920 influenza pandemic evolved in Europe. The Swiss genome reveals three key adaptations that made the virus more resistant to human immunity and more infectious.
Scientists have discovered that repeat RNAs aggregate inside droplets but can be disassembled with an engineered piece of RNA. The study sheds new light on how these clusters form within biomolecular condensates and presents a potential therapeutic application.
Researchers at IGTP reveal a clear separation between lesional and non-lesional tissue, with high expression of pro-inflammatory genes in lesions. The study identifies 17 differential transcriptomic modules and associates molecular profiles with clinical indicators from the same patients.
A new generative AI technique allows for the design of RNA molecules with improved functions, opening up potential for novel therapeutics and diagnostics. The SANDSTORM and GARDN systems enable the prediction and generation of RNA sequences tailored for specific tasks in cells or diagnostic assays.
This study explored the immune dynamics across different phases of HBV infection, identifying key factors influencing T cell function and liver priming. The research team uncovered distinct types of intrahepatic T lymphocytes and dual roles of DC-SIGN+ macrophages in modulating immune responses.
Researchers used AI-driven methods to analyze thousands of digital images of melanoma tumor tissue, identifying key immune cell structures that boost immunotherapy effects. The presence of these structures was linked to significantly better overall survival for patients with advanced melanoma.
Researchers have mapped the diversity of a globally important pea collection, revealing secrets behind Mendel's famous traits and uncovering agriculturally useful genetic diversity. The new set of gene bank and genomic resources could revolutionize pea breeding and research.
A team of Singaporean scientists has released a comprehensive long-read RNA sequencing dataset, SG-NEx, to accelerate biomarker discovery and precision medicine. The dataset offers deeper biological insights into RNA complexity, enabling researchers to detect clinically relevant biomarkers and develop better treatments.
Researchers have discovered RNA pseudouridine as a novel diagnostic target for colorectal cancer. The study found correlations between pseudouridine modifications and clinical markers, enabling potential non-invasive diagnosis. The findings provide a molecular framework for RNA epigenetics-based stratification and targeted interventions.
Research reveals DHX36 plays a crucial role in normal chromatin architecture and rRNA homeostasis during oocyte growth. DHX36 deficiency impairs meiotic maturation, post-fertilization embryonic development, and disrupts ribosome assembly.
A project aims to understand how temperature, light pollution, and bird abundance affect West Nile virus transmission in mosquitoes. The goal is to advise health departments on the best time to kill bugs and limit transmission.
A new study found that exosomes from children with pediatric obstructive sleep apnea (OSA) disrupted blood-brain barrier integrity, leading to cognitive impairments. The research suggests a broader impact on barrier function and identifies potential biomarkers for OSA-related neurocognitive dysfunction.
Researchers developed tomoseqr, a user-friendly software to estimate 3D spatial gene expression distribution. The software successfully reproduced known gene expression patterns and mapped the 3D spatial distribution of genes in zebrafish and planarians.
Researchers have developed a computational tool, Spotiphy, that uses generative AI to enhance the resolution of sequencing-based spatial transcriptomics without sacrificing gene coverage. This breakthrough enables single-cell resolution in tissue imaging while maintaining full transcriptome coverage.
A team of researchers at Queen Mary University of London discovered that disrupting a single amino acid in the vimentin protein makes breast cancer cells behave like stem cells. This mutation promotes tumour growth and increases cancer stemness in an oestrogen-independent manner.
This review highlights the transformative capabilities of single-cell and spatial genomics, providing critical insights into disease mechanisms and developing innovative therapies. The technologies enable comprehensive cell atlases, tracing the evolution of sequencing methods and incorporating multi-omics approaches, which significantl...
Researchers at St. Jude Children's Research Hospital developed a machine-learning algorithm capable of scaling with single-cell data repositories to deliver more accurate results. The new method, called CSI-GEP, uses unsupervised machine learning to remove bias from analyses, producing better results than existing methods.
Researchers at Sanford Burnham Prebys used two sequencing methods to reveal new mRNAs associated with Alzheimer's disease, dementia with Lewy bodies, and Parkinson's disease. The study found vast mRNA isoform diversity in genes related to neurodegenerative diseases.