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21.
Hewson I. J. Kellam 《CMAJ》1945,53(2):143-147
22.
The Vietnam Initiative on Zoonotic Infections (VIZIONS): A Strategic Approach to Studying Emerging Zoonotic Infectious Diseases 总被引:1,自引:0,他引:1
Maia A. Rabaa Ngo Tri Tue Tran My Phuc Juan Carrique-Mas Karen Saylors Matthew Cotten Juliet E. Bryant Ho Dang Trung Nghia Nguyen Van Cuong Hong Anh Pham Alessandra Berto Voong Vinh Phat Tran Thi Ngoc Dung Long Hoang Bao Ngo Thi Hoa Heiman Wertheim Behzad Nadjm Corina Monagin H. Rogier van Doorn Motiur Rahman My Phan Vu Tra James I. Campbell Maciej F. Boni Pham Thi Thanh Tam Lia van der Hoek Peter Simmonds Andrew Rambaut Tran Khanh Toan Nguyen Van Vinh Chau Tran Tinh Hien Nathan Wolfe Jeremy J. Farrar Guy Thwaites Paul Kellam Mark E. J. Woolhouse Stephen Baker 《EcoHealth》2015,12(4):726-735
23.
Baillie GJ Galiano M Agapow PM Myers R Chiam R Gall A Palser AL Watson SJ Hedge J Underwood A Platt S McLean E Pebody RG Rambaut A Green J Daniels R Pybus OG Kellam P Zambon M 《Journal of virology》2012,86(1):11-18
Virus gene sequencing and phylogenetics can be used to study the epidemiological dynamics of rapidly evolving viruses. With complete genome data, it becomes possible to identify and trace individual transmission chains of viruses such as influenza virus during the course of an epidemic. Here we sequenced 153 pandemic influenza H1N1/09 virus genomes from United Kingdom isolates from the first (127 isolates) and second (26 isolates) waves of the 2009 pandemic and used their sequences, dates of isolation, and geographical locations to infer the genetic epidemiology of the epidemic in the United Kingdom. We demonstrate that the epidemic in the United Kingdom was composed of many cocirculating lineages, among which at least 13 were exclusively or predominantly United Kingdom clusters. The estimated divergence times of two of the clusters predate the detection of pandemic H1N1/09 virus in the United Kingdom, suggesting that the pandemic H1N1/09 virus was already circulating in the United Kingdom before the first clinical case. Crucially, three clusters contain isolates from the second wave of infections in the United Kingdom, two of which represent chains of transmission that appear to have persisted within the United Kingdom between the first and second waves. This demonstrates that whole-genome analysis can track in fine detail the behavior of individual influenza virus lineages during the course of a single epidemic or pandemic. 相似文献
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26.
Homologies in Cambrian Onychophora 总被引:4,自引:0,他引:4
LARS RAMSKÖLD 《Lethaia: An International Journal of Palaeontology and Stratigraphy》1992,25(4):443-460
Marine animals related to Recent onychophorans form a significant component in Cambrian faunas. Twelve characters are analysed for homologies in the seven best known Cambrian onychophorans. New morphological evidence and homology analyses for several characters indicate an anteroposterior reversal of Hallucigenia and Microdictyon . Proposed expansion of the trunk in Microdietyon during compaction is rejected. A jaw is tentatively identified in Onychodictyon . The shape of the annulations and the disposition of the tenth leg pair in Aysheaia are reinterpreted, and the suggestion of two somites to the first appendage pair is rejected. A suggested morphocline may mirror the phylogeny of the group. The taxonomic confusion surrounding the supposed radiolarian family Eoconchariidae is cleared 相似文献
27.
VIDA: a virus database system for the organization of animal virus genome open reading frames 下载免费PDF全文
Albà MM Lee D Pearl FM Shepherd AJ Martin N Orengo CA Kellam P 《Nucleic acids research》2001,29(1):133-136
VIDA is a new virus database that organizes open reading frames (ORFs) from partial and complete genomic sequences from animal viruses. Currently VIDA includes all sequences from GenBank for Herpesviridae, Coronaviridae and Arteriviridae. The ORFs are organized into homologous protein families, which are identified on the basis of sequence similarity relationships. Conserved sequence regions of potential functional importance are identified and can be retrieved as sequence alignments. We use a controlled taxonomical and functional classification for all the proteins and protein families in the database. When available, protein structures that are related to the families have also been included. The database is available for online search and sequence information retrieval at http://www.biochem.ucl.ac.uk/bsm/virus_database/ VIDA.html. 相似文献
28.
Matthew Cotten Bas Oude Munnink Marta Canuti Martin Deijs Simon J. Watson Paul Kellam Lia van der Hoek 《PloS one》2014,9(4)
We have developed a full genome virus detection process that combines sensitive nucleic acid preparation optimised for virus identification in fecal material with Illumina MiSeq sequencing and a novel post-sequencing virus identification algorithm. Enriched viral nucleic acid was converted to double-stranded DNA and subjected to Illumina MiSeq sequencing. The resulting short reads were processed with a novel iterative Python algorithm SLIM for the identification of sequences with homology to known viruses. De novo assembly was then used to generate full viral genomes. The sensitivity of this process was demonstrated with a set of fecal samples from HIV-1 infected patients. A quantitative assessment of the mammalian, plant, and bacterial virus content of this compartment was generated and the deep sequencing data were sufficient to assembly 12 complete viral genomes from 6 virus families. The method detected high levels of enteropathic viruses that are normally controlled in healthy adults, but may be involved in the pathogenesis of HIV-1 infection and will provide a powerful tool for virus detection and for analyzing changes in the fecal virome associated with HIV-1 progression and pathogenesis. 相似文献
29.
Depledge DP Palser AL Watson SJ Lai IY Gray ER Grant P Kanda RK Leproust E Kellam P Breuer J 《PloS one》2011,6(11):e27805
Whole genome sequencing of viruses directly from clinical samples is integral for understanding the genetics of host-virus interactions. Here, we report the use of sample sparing target enrichment (by hybridisation) for viral nucleic acid separation and deep-sequencing of herpesvirus genomes directly from a range of clinical samples including saliva, blood, virus vesicles, cerebrospinal fluid, and tumour cell lines. We demonstrate the effectiveness of the method by deep-sequencing 13 highly cell-associated human herpesvirus genomes and generating full length genome alignments at high read depth. Moreover, we show the specificity of the method enables the study of viral population structures and their diversity within a range of clinical samples types. 相似文献
30.
Daly GM Bexfield N Heaney J Stubbs S Mayer AP Palser A Kellam P Drou N Caccamo M Tiley L Alexander GJ Bernal W Heeney JL 《PloS one》2011,6(12):e28879
Here we describe a virus discovery protocol for a range of different virus genera, that can be applied to biopsy-sized tissue samples. Our viral enrichment procedure, validated using canine and human liver samples, significantly improves viral read copy number and increases the length of viral contigs that can be generated by de novo assembly. This in turn enables the Illumina next generation sequencing (NGS) platform to be used as an effective tool for viral discovery from tissue samples. 相似文献