Results 61 to 70 of about 973,339 (276)

VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research [PDF]

, 2016
Accurate variant calling in next generation sequencing (NGS) is critical to understand cancer genomes better. Here we present VarDict, a novel and versatile variant caller for both DNA- and RNA-sequencing data.
Ahdesmaki, Miika, Barrett, J. Carl, Chapman, Brad, Dougherty, Brian, Dry, Jonathan R., Hofmann, Oliver, Johnson, Justin, Lai, Zhongwu, Markovets, Aleksandra, McEwen, Robert   +9 more
core   +2 more sources

Spatiotemporal and quantitative analyses of phosphoinositides – fluorescent probe—and mass spectrometry‐based approaches

FEBS Letters, EarlyView.
Fluorescent probes allow dynamic visualization of phosphoinositides in living cells (left), whereas mass spectrometry provides high‐sensitivity, isomer‐resolved quantitation (right). Their synergistic use captures complementary aspects of lipid signaling. This review illustrates how these approaches reveal the spatiotemporal regulation and quantitative
Hiroaki Kajiho, Shin Morioka, Junko Sasaki, Takehiko Sasaki   +3 more
wiley   +1 more source

Systemic cytokines drive conserved severity-associated myeloid responses across bacterial and viral infections

Communications Biology
Both bacterial and viral infections can trigger an overwhelming host response, leading to immunopathology and organ dysfunction. Multiple studies have reported dysregulated myeloid cell states in patients with bacterial sepsis or severe SARS-CoV-2 ...
Kimberly Kajihara, Donghong Yan, Gretchen L. Seim, Hannah Little-Hooy, Jing Kang, Cynthia Chen, Marco De Simone, Tim Delemarre, Spyros Darmanis, Haridha Shivram, Rebecca N. Bauer, Carrie M. Rosenberger, Sharookh B. Kapadia, Min Xu, Miguel Reyes   +14 more
doaj   +1 more source

ForestQC: Quality control on genetic variants from next-generation sequencing data using random forest. [PDF]

, 2019
Next-generation sequencing technology (NGS) enables the discovery of nearly all genetic variants present in a genome. A subset of these variants, however, may have poor sequencing quality due to limitations in NGS or variant callers.
Coppola, Giovanni, Freimer, Nelson B, Hwang, Sungoo, Jew, Brandon, Li, Jiajin, Sul, Jae Hoon, Zhan, Lingyu   +6 more
core   +1 more source

Phosphatidylinositol 4‐kinase as a target of pathogens—friend or foe?

FEBS Letters, EarlyView.
This graphical summary illustrates the roles of phosphatidylinositol 4‐kinases (PI4Ks). PI4Ks regulate key cellular processes and can be hijacked by pathogens, such as viruses, bacteria and parasites, to support their intracellular replication. Their dual role as essential host enzymes and pathogen cofactors makes them promising drug targets.
Ana C. Mendes, Guilherme M. Azevedo, Amanda P. Barcellos, Diana Bahia   +3 more
wiley   +1 more source

Putative mRNA Biomarkers for the Eradication of Infection in an Equine Experimental Model of Septic Arthritis

Veterinary Sciences
Septic arthritis (SA) in horses has long-term health implications. The success of its resolution hinges on the implementation of early, aggressive treatment, which is often sustained over a prolonged period. Common diagnostic methods do not allow for the
Roman V. Koziy, José L. Bracamonte, George S. Katselis, Daniel Udenze, Shahina Hayat, S. Austin Hammond, Elemir Simko   +6 more
doaj   +1 more source

The Technology and Innovation Unit of the National Institute of Health: A sequencing and bioinformatics core facility specializing in public health genomics [PDF]

, 2019
The National Institute of Health (INSA) has a long tradition in investigating the molecular etiology of genetic and complex diseases. These activities greatly benefit from centralized sequencing services provided by the Technology and Innovation Unit ...
Ataíde Sampaio, Daniel, Barreiro, Paula, Carpinteiro, Dina, Duarte, Sílvia, Isidro, Joana, Machado, Miguel, Mendonça, Joana, Silva, Catarina, Vieira, Luís   +8 more
core   +1 more source

A Cloud Infrastructure for Optimization of a Massive Parallel Sequencing Workflow [PDF]

, 2012
Massive Parallel Sequencing is a term used to describe several revolutionary approaches to DNA sequencing, the so-called Next Generation Sequencing technologies.
Abate, Francesco, Acquaviva, Andrea, Mossucca, L., Provenzano, R., Terzo, Olivier   +4 more
core   +1 more source

Protein pyrophosphorylation by inositol pyrophosphates — detection, function, and regulation

FEBS Letters, EarlyView.
Protein pyrophosphorylation is an unusual signaling mechanism that was discovered two decades ago. It can be driven by inositol pyrophosphate messengers and influences various cellular processes. Herein, we summarize the research progress and challenges of this field, covering pathways found to be regulated by this posttranslational modification as ...
Sarah Lampe, Tanmay Kumar Mohanty, Rashna Bhandari, Dorothea Fiedler   +3 more
wiley   +1 more source

Length distribution of sequencing by synthesis: fixed flow cycle model

, 2014
Sequencing by synthesis is the underlying technology for many next-generation DNA sequencing platforms. We developed a new model, the fixed flow cycle model, to derive the distributions of sequence length for a given number of flow cycles under the ...
Kong, Yong
core   +1 more source