IDTAXA: a novel approach for accurate taxonomic classification of microbiome sequences

被引:0
|
作者
Adithya Murali
Aniruddha Bhargava
Erik S. Wright
机构
[1] University of Wisconsin-Madison,Department of Computer Sciences
[2] University of Wisconsin-Madison,Department of Electrical and Computer Engineering
[3] University of Pittsburgh,Department of Biomedical Informatics, Pittsburgh Center for Evolutionary Biology and Medicine, School of Medicine
来源
Microbiome | / 6卷
关键词
Microbiome; 16S rRNA gene sequencing; ITS sequencing; Classification; Taxonomic assignment; Reference taxonomy;
D O I
暂无
中图分类号
学科分类号
摘要
引用
收藏
相关论文
共 50 条
  • [21] Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences
    Liu, Bo
    Gibbons, Theodore
    Ghodsi, Mohammad
    Treangen, Todd
    Pop, Mihai
    GENOME BIOLOGY, 2011, 12 : 10 - 11
  • [22] A novel kernel for sequences classification
    Yan, C
    Wang, ZZ
    Gao, QB
    Du, YH
    PROCEEDINGS OF THE 2005 IEEE INTERNATIONAL CONFERENCE ON NATURAL LANGUAGE PROCESSING AND KNOWLEDGE ENGINEERING (IEEE NLP-KE'05), 2005, : 769 - 773
  • [23] Taxonomic classification of metagenomic shotgun sequences with CARMA3
    Gerlach, Wolfgang
    Stoye, Jens
    NUCLEIC ACIDS RESEARCH, 2011, 39 (14) : e91
  • [24] ViCTree: an automated framework for taxonomic classification from protein sequences
    Modha, Sejal
    Thanki, Anil S.
    Cotmore, Susan F.
    Davison, Andrew J.
    Hughes, Joseph
    BIOINFORMATICS, 2018, 34 (13) : 2195 - 2200
  • [25] BERT contextual embeddings for taxonomic classification of bacterial DNA sequences
    Helaly, Marwah A.
    Rady, Sherine
    Aref, Mostafa M.
    EXPERT SYSTEMS WITH APPLICATIONS, 2022, 208
  • [26] A Goldilocks Principle for the Gut Microbiome: Taxonomic Resolution Matters for Microbiome-Based Classification of Colorectal Cancer
    Armour, Courtney R.
    Topcuoglu, Begum D.
    Garretto, Andrea
    Schloss, Patrick D.
    MBIO, 2022, 13 (01):
  • [27] The most accurate approach for reproductive tract microbiome analysis
    Diaz, M.
    Bernabeu, A.
    Lledo, B.
    Ortiz, J.
    Masbou, A.
    Keefe, D.
    Llacer, J.
    Bernabeu, R.
    HUMAN REPRODUCTION, 2018, 33 : 282 - 282
  • [28] Updated RDP taxonomy and RDP Classifier for more accurate taxonomic classification
    Wang, Qiong
    Cole, James R.
    MICROBIOLOGY RESOURCE ANNOUNCEMENTS, 2024, 13 (04):
  • [29] Taxonomic classification for microbiome analysis, which correlates well with the metabolite milieu of the gut
    Wakita, Yoshihisa
    Shimomura, Yumi
    Kitada, Yusuke
    Yamamoto, Hiroyuki
    Ohashi, Yoshiaki
    Matsumoto, Mitsuharu
    BMC MICROBIOLOGY, 2018, 18
  • [30] Taxonomic classification for microbiome analysis, which correlates well with the metabolite milieu of the gut
    Yoshihisa Wakita
    Yumi Shimomura
    Yusuke Kitada
    Hiroyuki Yamamoto
    Yoshiaki Ohashi
    Mitsuharu Matsumoto
    BMC Microbiology, 18