Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold
暂无分享,去创建一个
[1] T. Hackl,et al. Single cell genomes of Prochlorococcus, Synechococcus, and sympatric microbes from diverse marine environments , 2018, Scientific Data.
[2] Johannes Söding,et al. Clustering huge protein sequence sets in linear time , 2017, Nature Communications.
[3] P. Bork,et al. A global ocean atlas of eukaryotic genes , 2018, Nature Communications.
[4] Johannes Söding,et al. MMseqs2: sensitive protein sequence searching for the analysis of massive data sets , 2017, bioRxiv.
[5] O. Reva,et al. Assembling metagenomes, one community at a time , 2017, BMC Genomics.
[6] Philip D. Blood,et al. Critical Assessment of Metagenome Interpretation—a benchmark of metagenomics software , 2017, Nature Methods.
[7] Tom O. Delmont,et al. Tracking microbial colonization in fecal microbiota transplantation experiments via genome-resolved metagenomics , 2017, Microbiome.
[8] P. Pevzner,et al. metaSPAdes: a new versatile metagenomic assembler. , 2017, Genome research.
[9] Georgios A. Pavlopoulos,et al. Protein structure determination using metagenome sequence data , 2017, Science.
[10] John Vollmers,et al. Comparing and Evaluating Metagenome Assembly Tools from a Microbiologist’s Perspective - Not Only Size Matters! , 2017, PloS one.
[11] Minoru Kanehisa,et al. KEGG: new perspectives on genomes, pathways, diseases and drugs , 2016, Nucleic Acids Res..
[12] Maria Jesus Martin,et al. Uniclust databases of clustered and deeply annotated protein sequences and alignments , 2016, Nucleic Acids Res..
[13] Luis Pedro Coelho,et al. Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper , 2016, bioRxiv.
[14] Davide Heller,et al. eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences , 2015, Nucleic Acids Res..
[15] Martin C. Frith,et al. ALP & FALP: C++ libraries for pairwise local alignment E-values , 2015, Bioinform..
[16] Jun Wang,et al. Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota , 2015, Nature.
[17] T. R. Licht,et al. A catalog of the mouse gut metagenome , 2015, Nature Biotechnology.
[18] Shibu Yooseph,et al. SFA-SPA: a suffix array based short peptide assembler for metagenomic data , 2015, Bioinform..
[19] Luis Pedro Coelho,et al. Structure and function of the global ocean microbiome , 2015, Science.
[20] Kunihiko Sadakane,et al. MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph , 2014, Bioinform..
[21] Jens Roat Kultima,et al. Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes , 2014, Nature Biotechnology.
[22] Jens Roat Kultima,et al. An integrated catalog of reference genes in the human gut microbiome , 2014, Nature Biotechnology.
[23] N. Kashtan,et al. Single-Cell Genomics Reveals Hundreds of Coexisting Subpopulations in Wild Prochlorococcus , 2014, Science.
[24] S. Tringe,et al. Tackling soil diversity with the assembly of large, complex metagenomes , 2014, Proceedings of the National Academy of Sciences.
[25] Jens Roat Kultima,et al. Disentangling the effects of type 2 diabetes and metformin on the human gut microbiota , 2015, Nature.
[26] Jean-Michel Claverie,et al. Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes , 2013, The ISME Journal.
[27] Steven Salzberg,et al. BIOINFORMATICS ORIGINAL PAPER , 2004 .
[28] M. Frith. A new repeat-masking method enables specific detection of homologous sequences , 2010, Nucleic acids research.
[29] Miriam L. Land,et al. Trace: Tennessee Research and Creative Exchange Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification Recommended Citation Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification , 2022 .
[30] Haixu Tang,et al. An Orfome Assembly Approach to Metagenomics Sequences Analysis , 2009, J. Bioinform. Comput. Biol..
[31] E. Birney,et al. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. , 2008, Genome research.
[32] J. Skolnick,et al. How well is enzyme function conserved as a function of pairwise sequence identity? , 2003, Journal of molecular biology.