Results 41 to 50 of about 4,146,099 (286)

Race- and Isolate-specific Molecular Marker Development through Genome-Realignment Enables Detection of Korean Plasmodiophora brassicae Isolates, Causal agents of Clubroot Disease

The Plant Pathology Journal, 2018
Clubroot is one of the most economically important diseases of the Brassicaceae family. Clubroot disease is caused by the obligate parasite Plasmodiophora brassicae, which is difficult to study because it is non-culturable in the laboratory and its races
Ji -Yun Jeong, Arif Hasan Khan Robin, Sathishkumar Natarajan, Rawnak Laila, Hoy-Taek Kim, Jong-In Park, Ill-Sup Nou   +6 more
doaj   +1 more source

GSAlign: an efficient sequence alignment tool for intra-species genomes

BMC Genomics, 2020
Background Personal genomics and comparative genomics are becoming more important in clinical practice and genome research. Both fields require sequence alignment to discover sequence conservation and variation.
Hsin-Nan Lin, Wen-Lian Hsu
doaj   +1 more source

Progress in quickly finding orthologs as reciprocal best hits: comparing blast, last, diamond and MMseqs2

BMC Genomics, 2020
Background Finding orthologs remains an important bottleneck in comparative genomics analyses. While the authors of software for the quick comparison of protein sequences evaluate the speed of their software and compare their results against the most ...
Julie E. Hernández-Salmerón, Gabriel Moreno-Hagelsieb   +1 more
doaj   +1 more source

Comparative and phylogenetic analysis of complete chloroplast genomes from seven Neocinnamomum taxa (Lauraceae)

Frontiers in Plant Science, 2023
The genus Neocinnamomum is considered to be one of the most enigmatic groups in Lauraceae, mainly distributed in tropical and subtropical regions of Southeast Asia. The genus contains valuable oilseed and medicinal tree species.
Zhengying Cao, Zhengying Cao, Linyi Yang, Yaxuan Xin, Yaxuan Xin, Wenbin Xu, Qishao Li, Qishao Li, Haorong Zhang, Haorong Zhang, Yuxiang Tu, Yuxiang Tu, Yu Song, Peiyao Xin, Peiyao Xin   +14 more
doaj   +1 more source

Integrating overlapping structures and background information of words significantly improves biological sequence comparison. [PDF]

PLoS ONE, 2011
Word-based models have achieved promising results in sequence comparison. However, as the important statistical properties of words in biological sequence, how to use the overlapping structures and background information of the words to improve sequence ...
Qi Dai, Lihua Li, Xiaoqing Liu, Yuhua Yao, Fukun Zhao, Michael Zhang   +5 more
doaj   +1 more source

Protein secondary structure: Entropy, correlations and prediction [PDF]

, 2003
Is protein secondary structure primarily determined by local interactions between residues closely spaced along the amino acid backbone, or by non-local tertiary interactions?
Brenner, Steven E., Crooks, Gavin E.
core   +6 more sources

Genomic Analysis of a Novel Torradovirus “Rehmannia Torradovirus Virus”: Two Distinct Variants Infecting Rehmannia glutinosa

Microorganisms
Rehmannia glutinosa, a crucial medicinal plant native to China, is extensively cultivated across East Asia. We used high-throughput sequencing to identify viruses infecting R. glutinosa with mosaic, leaf yellowing, and necrotic symptoms.
Yanhong Qin, Shuhao Lu, Yi Wen, Shaojian Li, Suxia Gao, Desheng Zhang, Xuemeng Li, Jin Yang, Li Gu, Mingjie Li, Fei Wang, Chuantao Lu   +11 more
doaj   +1 more source

A greedy alignment-free distance estimator for phylogenetic inference

BMC Bioinformatics, 2017
Background Alignment-free sequence comparison approaches have been garnering increasing interest in various data- and compute-intensive applications such as phylogenetic inference for large-scale sequences.
Sharma V. Thankachan, Sriram P. Chockalingam, Yongchao Liu, Ambujam Krishnan, Srinivas Aluru   +4 more
doaj   +1 more source

An Introductory Guide to Aligning Networks Using SANA, the Simulated Annealing Network Aligner. [PDF]

, 2019
Sequence alignment has had an enormous impact on our understanding of biology, evolution, and disease. The alignment of biological networks holds similar promise.
A Chatr-Aryamontri, A Hasan, A Lesk, BH Junker, C Clark, C Mering Von, C Yang, CG El Van, D Davis, DM Prescott, EH Davidson, F Alkan, FE Faisal, FE Faisal, HT Phan, J Crawford, K Chen, K Mehlhorn, KI Smith, M Ashburner, M El-Kebir, M Kotlyar, M Malek, M Milano, M Vidal, MP Williamson, MR Garey, N Malod-Dognin, N Pržulj, N Yaveroğlu, O Fiehn, O Kuchaiev, O Kuchaiev, O Sporns, R Jaenicke, S Hashemifar, SA Cook, SF Altschul, SJ Larsen, T Hočevar, T Milenković, T Milenković, T Tokar, TA Farazi, V Saraph, V Vijayan   +45 more
core   +2 more sources

Evidence for the Link Between KK-42 and the DH-PBAN Gene in Two Silkmoth Species, with Impacts on Developmental Traits

Biology
Diapause hormone (DH) is an important endocrine substance capable of influencing diapause in Lepidoptera moths that is encoded by the neuropeptide hormone DH-PBAN gene.
Haixu Bian, Yufeng Lin, Yuping Li, Jingchen Sun, Yanqun Liu   +4 more
doaj   +1 more source