Results 101 to 110 of about 1,526,772 (381)

Fast sequence to graph alignment using the graph wavefront algorithm [PDF]

arXiv, 2022
Motivation: A pan-genome graph represents a collection of genomes and encodes sequence variations between them. It is a powerful data structure for studying multiple similar genomes. Sequence-to-graph alignment is an essential step for the construction and the analysis of pan-genome graphs. However, existing algorithms incur runtime proportional to the
arxiv  

Refining the NaV1.7 pharmacophore of a class of venom‐derived peptide inhibitors via a combination of in silico screening and rational engineering

FEBS Letters, EarlyView.
Venom peptides have shown promise in treating pain. Our study uses computer screening to identify a peptide that targets a sodium channel (NaV1.7) linked to chronic pain. We produced the peptide in the laboratory and refined its design, advancing the search for innovative pain therapies.
Gagan Sharma, Jennifer R. Deuis, Xinying Jia, Theo Crawford, Sassan Rahnama, Eivind A. B. Undheim, Irina Vetter, Yanni K. ‐Y. Chin, Mehdi Mobli   +8 more
wiley   +1 more source

Evaluation of intrafraction couch shifts for proton treatment delivery in head‐and‐neck cancer patients: Toward optimal imaging frequency

Journal of Applied Clinical Medical Physics, Volume 23, Issue 12, December 2022., 2022
Abstract Purpose Treatment planning for head‐and‐neck (H&N) cancer, in particular oropharynx, nasopharynx, and paranasal sinus cases, at our center requires noncoplanar proton beams due to the complexity of the anatomy and target location. Targeting accuracy for all beams is carefully evaluated by using image guidance before delivering proton beam ...
Nrusingh C. Biswal, Dario B. Rodrigues, Weiguang Yao, Jason K. Molitoris, Matthew E. Witek, Shifeng Chen   +5 more
wiley   +1 more source

The power of microRNA regulation—insights into immunity and metabolism

FEBS Letters, EarlyView.
MicroRNAs are emerging as crucial regulators at the intersection of metabolism and immunity. This review examines how miRNAs coordinate glucose and lipid metabolism while simultaneously modulating T‐cell development and immune responses. Moreover, it highlights how cutting‐edge artificial intelligence applications can identify miRNA biomarkers ...
Stefania Oliveto, Nicola Manfrini, Stefano Biffo   +2 more
wiley   +1 more source

Formatt: Correcting protein multiple structural alignments by incorporating sequence alignment

BMC Bioinformatics, 2012
Background The quality of multiple protein structure alignments are usually computed and assessed based on geometric functions of the coordinates of the backbone atoms from the protein chains.
Daniels Noah M, Nadimpalli Shilpa, Cowen Lenore J   +2 more
doaj   +1 more source

Higher accuracy protein Multiple Sequence Alignment by Stochastic Algorithm [PDF]

, 2010
Multiple Sequence Alignment gives insight into evolutionary, structural and functional relationships among the proteins. Here, a novel Protein Alignment by Stochastic Algorithm (PASA) is developed.
Alpana Dey, Justin Jose, Krishna Kant, M. S. Jeevitesh, Narayan Behera   +4 more
core   +1 more source

A Characteristic-Based Framework for Multiple Sequence Aligners [PDF]

, 2018
Rubio-Largo, Á., Vanneschi, L., Castelli, M., & Vega-Rodriguez, M. A. (2018). A Characteristic-Based Framework for Multiple Sequence Aligners. IEEE Transactions on Cybernetics, 48(1), 41-51.
Castelli, Mauro, Rubio-Largo, Álvaro, Vanneschi, Leonardo, Vega-Rodriguez, Miguel A.   +3 more
core   +1 more source

The Saccharomyces cerevisiae amino acid transporter Lyp1 has a broad substrate spectrum

FEBS Letters, EarlyView.
In Saccharomyces cerevisiae, Yeast Amino acid Transporter family members mediate the import of amino acids, ranging from substrate specialists to generalists. Here, we show that the specialist transporter, Lyp1, has a broader substrate spectrum than previously described, with affinity constants spanning from micromolar to millimolar.
Foteini Karapanagioti, Sebastian Obermaier, Dirk J. Slotboom, Bert Poolman   +3 more
wiley   +1 more source

A Linear Time Quantum Algorithm for Pairwise Sequence Alignment [PDF]

arXiv, 2023
Sequence Alignment is the process of aligning biological sequences in order to identify similarities between multiple sequences. In this paper, a Quantum Algorithm for finding the optimal alignment between DNA sequences has been demonstrated which works by mapping the sequence alignment problem into a path-searching problem through a 2D graph.
arxiv  

Clinical applications of next‐generation sequencing‐based ctDNA analyses in breast cancer: defining treatment targets and dynamic changes during disease progression

Molecular Oncology, EarlyView.
Circulating tumor DNA (ctDNA) offers a possibility for different applications in early and late stage breast cancer management. In early breast cancer tumor informed approaches are increasingly used for detecting molecular residual disease (MRD) and early recurrence. In advanced stage, ctDNA provides a possibility for monitoring disease progression and
Eva Valentina Klocker, Samantha Hasenleithner, Rupert Bartsch, Simon P. Gampenrieder, Daniel Egle, Christian F. Singer, Gabriel Rinnerthaler, Michael Hubalek, Katja Schmitz, Zsuzsanna Bago‐Horvath, Andreas Petzer, Sonja Heibl, Ellen Heitzer, Marija Balic, Michael Gnant   +14 more
wiley   +1 more source