Results 31 to 40 of about 57,228 (156)

Optimization of de novo transcriptome assembly from high-throughput short read sequencing data improves functional annotation for non-model organisms [PDF]

, 2012
Background: The k-mer hash length is a key factor affecting the output of de novo transcriptome assembly packages using de Bruijn graph algorithms. Assemblies constructed with varying single k-mer choices might result in the loss of unique contiguous ...
Haznedaroglu, Berat Z., Peccia, Jordan, Reeves, Darryl, Rismani-Yazdi, Hamid   +3 more
core   +3 more sources

Genomic and Cis‐Regulatory Basis of a Plastic C3‐C4 Photosynthesis in Eleocharis Baldwinii

Advanced Science, EarlyView.
The sedge Eleocharis baldwinii remarkably switches between C3‐like and C4‐like photosynthesis in response to environmental conditions. Combining gap‐free genome assembly with single‐cell multi‐omics, this study uncovers how subgenome dominance and cell‐specific cis‐regulation enable C4 photosynthesis.
Lu Chen, Yanfeng Jia, Zaihui Zhou, Qiying Jiang, Jianlin Liu, Jianhui Gu, Chuan Chen, Shujing Cheng, Jinfang Chu, Xin Liu, Yongjun Lin, Xiang Li   +11 more
wiley   +1 more source

Critical behavior of long straight rigid rods on two-dimensional lattices: Theory and Monte Carlo simulations

, 2008
The critical behavior of long straight rigid rods of length $k$ ($k$-mers) on square and triangular lattices at intermediate density has been studied. A nematic phase, characterized by a big domain of parallel $k$-mers, was found.
A. J. Ramirez-Pastor, D. A. Matoz-Fernandez, D. H. Linares, Freed K. F.   +3 more
core   +1 more source

Dual‐Locking the SARS‐CoV‐2 Spike Trimer: An Amphipathic Molecular “Bolt” Stabilizes Conserved Druggable Interfaces for Coronavirus Inhibition

Advanced Science, EarlyView.
A new amphipathic molecule, S416 is discovered, that locks the SARS‐CoV‐2 spike protein in its closed state, blocking viral entry. S416 acts as a molecular bolt, binding six sites: three between adjacent RBDs and three connecting NTDs to RBDs. This dual‐locking mechanism stiffens the spike structure and reduces its flexibility.
Shiliang Li, Fang Ye, Yucheng Zheng, Jie Wang, Haoran Peng, Lili Zhu, Lili Chen, Tao Yu, Huan Ge, Jiaqi He, Binghao Zhang, Jiayun Wu, Zhiyi Zhang, Liangliang Jiang, Geng Chen, Ping Zhao, Ke Lan, Zhenjiang Zhao, Xuhong Qian, Ke Xu, Yang Du, Honglin Li   +21 more
wiley   +1 more source

deepTFBS: Improving within‐ and Cross‐Species Prediction of Transcription Factor Binding Using Deep Multi‐Task and Transfer Learning

Advanced Science, EarlyView.
DeepTFBS leverages deep learning to predict transcription factor binding sites across species, integrating multi‐task and transfer learning approaches to improve performance in data‐scarce scenarios. This study demonstrates enhanced accuracy in intra‐ and cross‐species prediction, revealing conserved regulatory patterns and functional variants.
Jingjing Zhai, Yuzhou Zhang, Chujun Zhang, Xiaotong Yin, Minggui Song, Chenglong Tang, Pengjun Ding, Zenglin Li, Chuang Ma   +8 more
wiley   +1 more source

Phase ordering dynamics of reconstituting particles [PDF]

, 2017
We consider the large-time dynamics of one-dimensional processes involving adsorption and desorption of extended hard-core particles (dimers, trimers,⋯, k-mers), while interacting through their constituent monomers.
Grynberg, Marcelo Daniel, Gómez Albarracín, Flavia Alejandra, Rosales, Héctor Diego   +2 more
core   +3 more sources

Subgenome Dominance in Allotetraploid Actinidia valvata Regulates RNA m6A Modification for Waterlogging Tolerance

Advanced Science, EarlyView.
The waterlogging tolerance of allotetraploid Actinidia valvata is inherited from one of its diploid progenitors, which leads to subgenome expression dominance, mediated by complex mechanisms including altered chromatin accessibility and DNA methylation.
Xiaoli Hu, Changbin Xu, Xiaolan Li, Lin Li, Yu Bao, Miaofeng Gu, Xinyi Li, Liuqing Huo, Jinli Gong, Xiaolong Li, Minhui Wang, Kai Xu, Xueren Yin, Zhangjun Fei, Xuepeng Sun   +14 more
wiley   +1 more source

Motor Evoked Potentials Improve Targeting in Deep Brain Stimulation Surgery

Neuromodulation: Technology at the Neural Interface, EarlyView., 2021
Abstract Objectives One of the main challenges posed by the surgical deep brain stimulation (DBS) procedure is the successful targeting of the structures of interest and avoidance of side effects, especially in asleep surgery. Here, intraoperative motor evoked potentials (MEPs) might serve as tool to identify the pyramidal tract.
Petyo Nikolov, Verena Heil, Christian J. Hartmann, Nikola Ivanov, Philipp J. Slotty, Jan Vesper, Alfons Schnitzler, Stefan Jun Groiss   +7 more
wiley   +1 more source

Jamming and percolation in random sequential adsorption of straight rigid rods on a two-dimensional triangular lattice [PDF]

, 2017
Monte Carlo simulations and finite-size scaling analysis have been performed to study the jamming and percolation behavior of linear $k$-mers (also known as rods or needles) on the two-dimensional triangular lattice, considering an isotropic RSA process ...
A J Ramirez-Pastor, Binder K, Budinski-Petković L, Cadilhe A, Centres P M, D A Matoz-Fernandez, E J Perino, Evans J W, P M Pasinetti, Sahimi M, Stauffer D   +10 more
core   +3 more sources

Trypstatin as a Novel TMPRSS2 Inhibitor with Broad‐Spectrum Efficacy against Corona and Influenza Viruses

Advanced Science, EarlyView.
Trypstatin, a 61‐amino acid Kunitz‐type protease inhibitor derived from human Bikunin, potently inhibits TMPRSS2 and related proteases. It blocks spike‐ and hemagglutinin‐mediated entry of multiple respiratory viruses in vitro reduces SARS‐CoV‐2 replication in human airway cultures, and lowers viral load and symptoms in infected hamsters, demonstrating
Jan Lawrenz, Lukas Wettstein, Armando Rodríguez Alfonso, Rayhane Nchioua, Pascal von Maltitz, Dan Pascal Jean Albers, Fabian Zech, Julie Vandeput, Lieve Naesens, Giorgio Fois, Veronika Neubauer, Nico Preising, Emilia Schmierer, Yasser Almeida‐Hernandez, Moritz Petersen, Ludger Ständker, Sebastian Wiese, Peter Braubach, Manfred Frick, Eberhard Barth, Daniel Sauter, Frank Kirchhoff, Elsa Sanchez‐Garcia, Annelies Stevaert, Jan Münch   +24 more
wiley   +1 more source