TY - JOUR AU - Schleifer, K. H. AU - Kilpper-Bälz, R. PY - 1984 DA - 1984// TI - Transfer of Streptococcus faecalis and Streptococcus faecium to the Genus Enterococcus nom. rev. as Enterococcus faecalis comb. nov. and Enterococcus faecium comb. nov JO - Int J Syst Evol Microbiol VL - 34 ID - Schleifer1984 ER - TY - JOUR AU - Paulsen, I. T. AU - Banerjei, L. AU - Myers, G. S. AU - Nelson, K. E. AU - Seshadri, R. AU - Read, T. D. PY - 2003 DA - 2003// TI - Role of mobile DNA in the evolution of vancomycin-resistant Enterococcus faecalis JO - Science VL - 299 UR - https://doi.org/10.1126/science.1080613 DO - 10.1126/science.1080613 ID - Paulsen2003 ER - TY - JOUR AU - Kayaoglu, G. AU - Orstavik, D. PY - 2004 DA - 2004// TI - Virulence factors of Enterococcus faecalis: relationship to endodontic disease JO - Crit Rev Oral Biol Med VL - 15 UR - https://doi.org/10.1177/154411130401500506 DO - 10.1177/154411130401500506 ID - Kayaoglu2004 ER - TY - JOUR AU - Chin, C. S. AU - Alexander, D. H. AU - Marks, P. AU - Klammer, A. A. AU - Drake, J. AU - Heiner, C. PY - 2013 DA - 2013// TI - Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data JO - Nat Methods VL - 10 UR - https://doi.org/10.1038/nmeth.2474 DO - 10.1038/nmeth.2474 ID - Chin2013 ER - TY - JOUR AU - Delcher, A. L. AU - Bratke, K. A. AU - Powers, E. C. AU - Salzberg, S. L. PY - 2007 DA - 2007// TI - Identifying bacterial genes and endosymbiont DNA with Glimmer JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btm009 DO - 10.1093/bioinformatics/btm009 ID - Delcher2007 ER - TY - JOUR AU - Aziz, R. K. AU - Bartels, D. AU - Best, A. A. AU - DeJongh, M. AU - Disz, T. AU - Edwards, R. A. PY - 2008 DA - 2008// TI - The RAST server: rapid annotations using subsystems technology JO - BMC Genomics VL - 9 UR - https://doi.org/10.1186/1471-2164-9-75 DO - 10.1186/1471-2164-9-75 ID - Aziz2008 ER - TY - JOUR AU - Galperin, M. Y. AU - Makarova, K. S. AU - Wolf, Y. I. AU - Koonin, E. V. PY - 2015 DA - 2015// TI - Expanded microbial genome coverage and improved protein family annotation in the COG database JO - Nucleic Acids Res VL - 43 UR - https://doi.org/10.1093/nar/gku1223 DO - 10.1093/nar/gku1223 ID - Galperin2015 ER - TY - JOUR AU - Overbeek, R. AU - Begley, T. AU - Butler, R. M. AU - Choudhuri, J. V. AU - Chuang, H. Y. AU - Cohoon, M. PY - 2005 DA - 2005// TI - The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes JO - Nucleic Acids Res VL - 33 UR - https://doi.org/10.1093/nar/gki866 DO - 10.1093/nar/gki866 ID - Overbeek2005 ER - TY - JOUR AU - Lagesen, K. AU - Hallin, P. AU - Rodland, E. A. AU - Staerfeldt, H. H. AU - Rognes, T. AU - Ussery, D. W. PY - 2007 DA - 2007// TI - RNAmmer: consistent and rapid annotation of ribosomal RNA genes JO - Nucleic Acids Res VL - 35 UR - https://doi.org/10.1093/nar/gkm160 DO - 10.1093/nar/gkm160 ID - Lagesen2007 ER - TY - JOUR AU - Lowe, T. M. AU - Eddy, S. R. PY - 1997 DA - 1997// TI - tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence JO - Nucleic Acids Res VL - 25 UR - https://doi.org/10.1093/nar/25.5.0955 DO - 10.1093/nar/25.5.0955 ID - Lowe1997 ER - TY - JOUR AU - Darling, A. C. AU - Mau, B. AU - Blattner, F. R. AU - Perna, N. T. PY - 2004 DA - 2004// TI - Mauve: multiple alignment of conserved genomic sequence with rearrangements JO - Genome Res VL - 14 UR - https://doi.org/10.1101/gr.2289704 DO - 10.1101/gr.2289704 ID - Darling2004 ER - TY - JOUR AU - Lee, I. AU - Kim, Y. O. AU - Park, S. C. AU - Chun, J. PY - 2016 DA - 2016// TI - OrthoANI: an improved algorithm and software for calculating average nucleotide identity JO - Int J Syst Evol Microbiol. VL - 66 UR - https://doi.org/10.1099/ijsem.0.000760 DO - 10.1099/ijsem.0.000760 ID - Lee2016 ER - TY - JOUR AU - Ward, N. AU - Moreno-Hagelsieb, G. PY - 2014 DA - 2014// TI - Quickly finding orthologs as reciprocal best hits with BLAT, LAST, and UBLAST: how much do we miss? JO - PLoS ONE VL - 9 UR - https://doi.org/10.1371/journal.pone.0101850 DO - 10.1371/journal.pone.0101850 ID - Ward2014 ER - TY - JOUR AU - Bardou, P. AU - Mariette, J. AU - Escudie, F. AU - Djemiel, C. AU - Klopp, C. PY - 2014 DA - 2014// TI - jvenn: an interactive Venn diagram viewer JO - BMC Bioinformatics VL - 15 UR - https://doi.org/10.1186/1471-2105-15-293 DO - 10.1186/1471-2105-15-293 ID - Bardou2014 ER -