Abstract:
:Predicting the hosts of newly discovered viruses is important for pandemic surveillance of infectious diseases. We investigated the use of alignment-based and alignment-free methods and support vector machine using mononucleotide frequency and dinucleotide bias to predict the hosts of viruses, and applied these approaches to three datasets: rabies virus, coronavirus, and influenza A virus. For coronavirus, we used the spike gene sequences, while for rabies and influenza A viruses, we used the more conserved nucleoprotein gene sequences. We compared the three methods under different scenarios and showed that their performances are highly correlated with the variability of sequences and sample size. For conserved genes like the nucleoprotein gene, longer k-mers than mono- and dinucleotides are needed to better distinguish the sequences. We also showed that both alignment-based and alignment-free methods can accurately predict the hosts of viruses. When alignment is difficult to achieve or highly time-consuming, alignment-free methods can be a promising substitute to predict the hosts of new viruses.
journal_name
Sci Repjournal_title
Scientific reportsauthors
Li H,Sun Fdoi
10.1038/s41598-018-28308-xsubject
Has Abstractpub_date
2018-07-03 00:00:00pages
10032issue
1issn
2045-2322pii
10.1038/s41598-018-28308-xjournal_volume
8pub_type
杂志文章abstract::Zooplankton provide the key link between primary production and higher levels of the marine food web and they play an important role in mediating carbon sequestration in the ocean. All commercially harvested fish species depend on zooplankton populations. However, spatio-temporal distributions of zooplankton are notor...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-37129-x
更新日期:2019-01-24 00:00:00
abstract::Spirotetramat is employed worldwide to fight insect pests due to its high efficiency. This chemical is quickly metabolized by plants into spirotetramat-enol, so current regulations establish that both compounds must be determined in foodstuffs for monitoring purposes. Nowadays, immunochemical methods constitute rapid ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-021-81432-z
更新日期:2021-01-19 00:00:00
abstract::We address the impact of the spin-orbit (SO) coupling on the localization-delocalization-transition (LDT) in a spin-orbit coupled Bose-Einstein condensate in a bichromatic potential. We find that SO coupling significantly alters the threshold depth of the one of sublattices above which the lowest eigenstates transform...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep31700
更新日期:2016-08-17 00:00:00
abstract::Recently, long non-coding RNAs (lncRNAs) have emerged as an important class of molecules involved in many cellular processes. One of their primary functions is to shape epigenetic landscape through interactions with chromatin modifying proteins. However, mechanisms contributing to the specificity of such interactions ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep41669
更新日期:2017-01-31 00:00:00
abstract::We investigated whether dogs remember their spontaneous past actions relying on episodic-like memory. Dogs were trained to repeat a small set of actions upon request. Then we tested them on their ability to repeat other actions produced by themselves, including actions performed spontaneously in everyday situations. D...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-67302-0
更新日期:2020-06-26 00:00:00
abstract::The 1111-type iron-based superconductor LnFeAsO(1-x)Fx (Ln stands for lanthanide) is the first material with a Tc above 50 K, other than cuprate superconductors. Electron doping into LaFeAsO by H, rather than F, revealed a double-dome-shaped Tc-x diagram, with a first dome (SC1, 0.05 journal_title:Scientific reports pub_type: 杂志文章 doi:10.1038/srep07829 更新日期:2015-01-16 00:00:00
abstract::In this study, we categorize the microbial community in mangrove sediment samples from four different locations within a vast mangrove system in Kerala, India. We compared this data to other samples taken from the other known mangrove data, a tropical rainforest, and ocean sediment. An examination of the microbial com...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-017-09254-6
更新日期:2017-08-18 00:00:00
abstract::To compare the soil water balance, yield and water use efficiency (WUE) of spring maize under different mulching types in the Loess Plateau, a 7-year field experiment was conducted in the Changwu region of the Loess Plateau. Three treatments were used in this experiment: straw mulch (SM), plastic film mulch (PM) and c...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep38995
更新日期:2016-12-15 00:00:00
abstract::Kidney dysfunction, a deleterious effect of obesity, is now recognized as a relevant health risk. Chemokine (C-C Motif) Ligand 2 (CCL2) is one of the critical chemokines that play a vital role in the development of obesity-related metabolic disease. We aim to measure the changes in urinary CCL2 in our patients before ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-57763-8
更新日期:2020-01-21 00:00:00
abstract::It has been suggested that orthographic transparency and age changes may affect the relationship between visual attention span (VAS) deficit and reading difficulty. The present study explored the developmental trend of VAS in children with developmental dyslexia (DD) in Chinese, a logographic language with a deep orth...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-21578-5
更新日期:2018-02-16 00:00:00
abstract::Spermatogenesis in the mouse has been extensively studied for decades. Previous methods, such as histological staining or bulk transcriptome analysis, either lacked resolution at the single-cell level or were focused on a very narrowly defined set of factors. Here, we present the first comprehensive, unbiased single-c...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-24725-0
更新日期:2018-04-25 00:00:00
abstract::Spreading rumors on the Internet has become increasingly pervasive due to the proliferation of online social media. This paper investigates how rumors are amplified by a group of users who share similar interests or views, dubbed as an echo chamber. To this end, we identify and analyze 'rumor' echo chambers, each of w...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-57272-3
更新日期:2020-01-15 00:00:00
abstract::We wanted to determine whether subjective sleep disturbance was associated with serum glycated hemoglobin (HbA1c) in people with type 2 diabetes mellitus. In total, 944 randomly-selected people with diabetes completed the Chinese version of the Pittsburgh Sleep Quality Index (PSQI). Participants' glycaemia was assesse...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-50814-9
更新日期:2019-10-03 00:00:00
abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...
journal_title:Scientific reports
pub_type: 已发布勘误
doi:10.1038/s41598-020-58958-9
更新日期:2020-02-19 00:00:00
abstract::Nanodiamond (ND) has emerged as a promising carbon nanomaterial for therapeutic applications. In previous studies, ND has been reported to have outstanding biocompatibility and high uptake rate in various cell types. ND containing nitrogen-vacancy centers exhibit fluorescence property is called fluorescent nanodiamond...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep06919
更新日期:2014-11-05 00:00:00
abstract::Opioids are effective analgesics for the management of moderate to severe cancer pain. Here we show that κ opioid receptor (KOR) agonists act as anti-angiogenic factors in tumors. Treatment with KOR agonists, U50,488H and TRK820, significantly inhibited human umbilical vein endothelial cell (HUVEC) migration and tube ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep03213
更新日期:2013-11-14 00:00:00
abstract::Hydrogels have been developed and applied to various biomedical applications due to their biocompatibility. However, understanding of modulation between cells to hydrogel interface is still unclear, and parameters to explain the interaction are not sophisticated enough. In this report, we studied the effect of polymer...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-38951-7
更新日期:2019-02-21 00:00:00
abstract::Converging evidence from laboratory models pointed that the widely used antidiabetic drug metformin has direct effects on cancer cells. Thus far, relatively little attention has been addressed to the drug exposures used experimentally relative to those achievable clinically. Here, we demonstrated that metformin loaded...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-017-01118-3
更新日期:2017-04-21 00:00:00
abstract::Sustainable canola production is essential to meet growing human demands for vegetable oil, biodiesel, and meal for stock feed markets. Blackleg, caused by the fungal pathogen, Leptosphaeria maculans is a devastating disease that can lead to significant yield loss in many canola production regions worldwide. Breakdown...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-61211-y
更新日期:2020-03-10 00:00:00
abstract::The androgen receptor (AR) regulates male sexual development. We have now investigated AR homodimerization, hormone-dependent monomerization and nuclear translocation in PC-3 and COS-1 cells, by utilizing mutations associated with the androgen insensitivity syndrome: Pro767Ala, Phe765Leu, Met743Val and Trp742Arg. AR w...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-53139-9
更新日期:2019-11-13 00:00:00
abstract::The paper presents the experimental results of studying the dynamics of electron energy relaxation in structures made of thin (d ≈ 6 nm) disordered superconducting vanadium nitride (VN) films converted to a resistive state by high-frequency radiation and transport current. Under conditions of quasi-equilibrium superco...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-73850-2
更新日期:2020-10-08 00:00:00
abstract::Pregnancy and puerperium are typified by marked biobehavioral changes. These changes, which are traceable in both mothers and fathers, play an important role in parenthood and may modulate social cognition abilities. However, the latter effects remain notably unexplored in parents of newborns (PNs). To bridge this gap...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-62622-7
更新日期:2020-04-01 00:00:00
abstract::Mutations in genes that encode components of tuberous sclerosis complex 2 (TSC2) are associated with tuberous sclerosis complex disease. TSC2 interacts with tuberous sclerosis complex 1 to form a complex that negatively regulates cell growth and proliferation via the inactivation of mechanistic target of rapamycin com...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-020-78274-6
更新日期:2020-12-03 00:00:00
abstract::Test anxiety is a condition in which people experience extreme distress and anxiety before and in test situations. It affects up to 40 percent of all students. Conventional treatment includes both medication and psychotherapy, but studies also demonstrated that placebos affect anxiety symptoms. Although in the traditi...
journal_title:Scientific reports
pub_type: 杂志文章,随机对照试验
doi:10.1038/s41598-019-49466-6
更新日期:2019-09-16 00:00:00
abstract::Objectives were to evaluate the role of canonical WNT signaling in development of the preimplantation embryo. Signaling was activated with 2-Amino-4-(3,4-(methylenedioxy)benzylamino)-6-(3-methoxyphenyl)pyrimidine (AMBMP) and inhibited with Dickkopf-related protein 1 (DKK1). Treatment of bovine embryos with AMBMP at da...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep01266
更新日期:2013-01-01 00:00:00
abstract::Three kinds of Al-TiO2 samples and pure TiO2 samples were synthesized via a modified polyacrylamide gel route using different aluminum salts, including Al2(SO4)3∙18H2O, AlCl3, and Al(NO3)3∙9H2O under identical conditions. The influence of different aluminum salts on the phase purity, morphologies, thermal stability of...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-017-08216-2
更新日期:2017-08-14 00:00:00
abstract::A weakening of the gut mucous barrier permits an increase in the access of intestinal luminal contents to the epithelial cells, which will trigger the inflammatory response. In inflammatory bowel diseases, there is an inappropriate and ongoing activation of the immune system, possibly because the intestinal mucus is l...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/srep09577
更新日期:2015-05-14 00:00:00
abstract::Age-related changes to the balance between the pressure inside the eye (intraocular pressure, IOP) and the pressure inside the brain (intracranial pressure, ICP) can modify the risk of glaucoma. In this study, we consider whether the optic nerve in older rat eyes is more susceptible to acute IOP and ICP modification. ...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-018-21203-5
更新日期:2018-02-13 00:00:00
abstract::LED-based photoacoustic imaging has practical value in that it is affordable and rugged; however, this technology has largely been confined to anatomic imaging with limited applications into functional or molecular imaging. Here, we report molecular imaging reactive oxygen and nitrogen species (RONS) with a near-infra...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-47599-2
更新日期:2019-08-06 00:00:00
abstract::The restoration of biodiversity within previously improved grasslands is an important objective worldwide. In some areas farmers receive remuneration for using specific strategies but the environmental responses to them are still uncertain. This study explored the short and long-term impacts of sheep grazing and/or ha...
journal_title:Scientific reports
pub_type: 杂志文章
doi:10.1038/s41598-019-46800-w
更新日期:2019-07-31 00:00:00