We investigated whether exposure to carcinogenic diesel engine exhaust (DEE) was associated with altered adduct levels in human serum albumin (HSA) residues. Nano-liquid chromatography-high resolution mass spectrometry (nLC-HRMS) was used to measure ... Read More
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Exposure to diesel engine exhaust and alterations to the Cys34/Lys525 adductome of human serum albumin
- Environmental Toxicology and Pharmacology
- VOL. 95
on Oct 1, 2022
From genome structure to function: insights into structural variation in microbiology
- Current Opinion in Microbiology
- VOL. 69
on Oct 1, 2022
Structural variation in bacterial genomes is an important evolutionary driver. Genomic rearrangements, such as inversions, duplications, and insertions, can regulate gene expression and promote niche adaptation. Importantly, many of these variations ... Read More
Ensemble approach on predicting blood platelets using supervised approach via computational bio informatics
- International journal of health sciences
on Sep 27, 2022
Platelets are little leukocytes that are essential for such blood coagulation. When an individual does not generate sufficient platelets they won't function effectively, then they will likely to have frequent haemorrhage and bruising since normal det... Read More
Development, Evaluation, and Implementation of a House-Made Targeted Next-Generation Sequencing Spoligotyping in a French Laboratory
- International Journal of Molecular Sciences
- VOL. 23
on Sep 25, 2022
Epidemiological studies investigating transmission chains of tuberculosis are undertaken worldwide to tackle its spread. CRISPR locus diversity, called spoligotyping, is a widely used genotyping assay for Mycobacterium tuberculosis complex (MTBC) cha... Read More
Stmol: A component for building interactive molecular visualizations within streamlit web-applications
- Frontiers in Molecular Biosciences
- VOL. 9
on Sep 23, 2022
Streamlit is an open-source Python coding framework for building web-applications or “web-apps” and is now being used by researchers to share large data sets from published studies and other resources. Here we present Stmol, an easy-to-use component ... Read More
Rapid genome sequencing for pediatrics
- Human Mutation
on Sep 23, 2022
The advancements made in next-generation sequencing (NGS) technology over the past two decades have transformed our understanding of genetic variation in humans and had a profound impact on our ability to diagnose patients with rare genetic diseases.... Read More
A Comparative Study of RNA-Seq Aligners Reveals Novoalign’s Default Setting as an Optimal Setting for the Alignment of HeLa RNA-Seq Reads
- Pertanika Journal of Science and Technology
- VOL. 30
on Sep 23, 2022
The introduction of RNA-sequencing (RNA-Seq) technology into biological research has encouraged bioinformatics developers to build various analysis pipelines. The chosen bioinformatics pipeline mostly depends on the research goals and organisms of in... Read More
DRNASb: a systems biology approach to decipher dynamics of host-pathogen interactions using temporal dual RNA-seq data
- Microbial Genomics
- VOL. 8
on Sep 22, 2022
Infection triggers a dynamic cascade of reciprocal events between host and pathogen wherein the host activates complex mechanisms to recognise and kill pathogens while the pathogen often adjusts its virulence and fitness to avoid eradication by the h... Read More
Comparison of Intracellular Transcriptional Response of NHBE Cells to Infection with SARS-CoV-2 Washington and New York Strains
- Frontiers in Cellular and Infection Microbiology
- VOL. 12
on Sep 20, 2022
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) was first reported in Wuhan, China in December 2019 and caused a global pandemic resulting in millions of deaths and tens of millions of patients positive tests. While studies have shown a ... Read More
Protocol to identify host-viral protein interactions between coagulation-related proteins and their genetic variants with SARS-CoV-2 proteins.
- STAR protocols
- VOL. 3
on Sep 16, 2022
Here, we describe a bioinformatics pipeline that evaluates the interactions between coagulation-related proteins and genetic variants with SARS-CoV-2 proteins. This pipeline searches for host proteins that may bind to viral protein and identifies and... Read More
Targeted Sequencing of Germline Breast Cancer Susceptibility Genes for Discovering Pathogenic/Likely Pathogenic Variants in the Jakarta Population
- Diagnostics
- VOL. 12
on Sep 16, 2022
Germline predisposition plays an important role in breast cancer. Different ethnic populations need respective studies on cancer risks pertinent to germline variants. We aimed to discover the pathogenic and likely pathogenic variants (P/LP-Vs) of ger... Read More
Diagnosis of a Single-Nucleotide Variant in Whole-Exome Sequencing Data for Patients With Inherited Diseases: Machine Learning Study Using Artificial Intelligence Variant Prioritization
- JMIR Bioinformatics and Biotechnology
- VOL. 3
on Sep 15, 2022
Background In recent years, thanks to the rapid development of next-generation sequencing (NGS) technology, an entire human genome can be sequenced in a short period. As a result, NGS technology is now being widely introduced... Read More
Methylation of the 4q35 D4Z4 repeat defines disease status in facioscapulohumeral muscular dystrophy
- Brain
on Sep 14, 2022
Abstract Genetic diagnosis of facioscapulohumeral muscular dystrophy (FSHD) remains a challenge in clinical practice as it cannot be detected by standard sequencing methods despite being the third most common muscular dystrophy. The co... Read More
Novel frameshift mutation in LIS1 gene is a probable cause of lissencephaly: a case report
- BMC Pediatrics
- VOL. 22
on Sep 14, 2022
Abstract Background Lissencephaly (LIS) is a cortical malformation, characterized by smooth or nearly smooth cerebral surface and a shortage of gyral and sulcal development, which is caused by deficient neuronal migrat... Read More
Rapid genome sequencing for paediatrics.
- Human mutation
on Sep 10, 2022
The advancements made in Next Generation Sequencing (NGS) technology over the past two decades have transformed our understanding of genetic variation in humans and had a profound impact on our ability to diagnose patients with rare genetic diseases.... Read More
TurboPutative: A web server for data handling and metabolite classification in untargeted metabolomics
- Frontiers in Molecular Biosciences
- VOL. 9
on Sep 8, 2022
Untargeted metabolomics aims at measuring the entire set of metabolites in a wide range of biological samples. However, due to the high chemical diversity of metabolites that range from small to large and more complex molecules (i.e., amino acids/car... Read More
An integrative bioinformatics pipeline shows that honeybee‐associated microbiomes are driven primarily by pollen composition
- Insect Science
on Sep 7, 2022
The microbiomes associated with bee nests influence colony health through various mechanisms, although it is not yet clear how honeybee congeners differ in microbiome assembly processes, in particular the degrees to which floral visitations and the e... Read More
Exposure to diesel engine exhaust and alterations to the Cys34/Lys525 adductome of human serum albumin.
- Environmental toxicology and pharmacology
- VOL. 95
on Sep 5, 2022
We investigated whether exposure to carcinogenic diesel engine exhaust (DEE) was associated with altered adduct levels in human serum albumin (HSA) residues. Nano-liquid chromatography-high resolution mass spectrometry (nLC-HRMS) was used to measure ... Read More
Principles and Validation of Bioinformatics Pipeline for Cancer Next-Generation Sequencing
- Clinics in Laboratory Medicine
- VOL. 42
on Sep 1, 2022
Clinical bioinformatics plays a key role in the implementation of clinical next-generation sequencing (NGS) testing infrastructure. Bioinformatics workflows in a clinical laboratory are complex and therefore need to be validated as part of an end-to-... Read More
Multi-stage transcriptome profiling of the neglected food-borne echinostome Artyfechinostomum sufrartyfex reveal potential diagnostic and drug targets
- Acta Tropica
- VOL. 233
on Sep 1, 2022
Lack of effective surveillance and control methods for neglected helminth diseases particularly in context of rural areas in India is a serious concern in terms of public health. With regard to the emerging food-borne echinostomid Artyfechinostomum s... Read More