CSI-Microbes: Identifying cell-type specific intracellular microbes from single-cell RNA-seq data

被引:0
|
作者
Robinson, Welles [1 ]
Schischlik, Fiorella [1 ]
Gertz, E. Michael [1 ]
Lee, Joo S. [2 ]
Zhu, Kaiyuan [1 ]
Sahinalp, S. Cenk [1 ]
Patro, Rob [3 ]
Leiserson, Mark D. [3 ]
Schaffer, Alejandro A. [1 ]
Ruppin, Eytan [1 ]
机构
[1] NCI, Bethesda, MD USA
[2] Sungkyunkwan Univ, Sch Med, Suwon, South Korea
[3] Univ Maryland, College Pk, MD USA
关键词
D O I
暂无
中图分类号
R73 [肿瘤学];
学科分类号
100214 ;
摘要
3048
引用
收藏
页数:1
相关论文
共 50 条
  • [1] Identification of intracellular bacteria from multiple single-cell RNA-seq platforms using CSI-Microbes
    Robinson, Welles
    Stone, Joshua K.
    Schischlik, Fiorella
    Gasmi, Billel
    Kelly, Michael C.
    Seibert, Charlie
    Dadkhah, Kimia
    Gertz, E. Michael
    Lee, Joo Sang
    Zhu, Kaiyuan
    Ma, Lichun
    Wang, Xin Wei
    Sahinalp, S. Cenk
    Patro, Rob
    Leiserson, Mark D. M.
    Harris, Curtis C.
    Schaffer, Alejandro A.
    Ruppin, Eytan
    SCIENCE ADVANCES, 2024, 10 (27):
  • [2] Review of single-cell RNA-seq data clustering for cell-type identification and characterization
    Zhang, Shixiong
    Li, Xiangtao
    Lin, Jiecong
    Lin, Qiuzhen
    Wong, Ka-Chun
    RNA, 2023, 29 (05) : 517 - 530
  • [3] Impact of data preprocessing on cell-type clustering based on single-cell RNA-seq data
    Wang, Chunxiang
    Gao, Xin
    Liu, Juntao
    BMC BIOINFORMATICS, 2020, 21 (01)
  • [4] Impact of data preprocessing on cell-type clustering based on single-cell RNA-seq data
    Chunxiang Wang
    Xin Gao
    Juntao Liu
    BMC Bioinformatics, 21
  • [5] scPred: accurate supervised method for cell-type classification from single-cell RNA-seq data
    Alquicira-Hernandez, Jose
    Sathe, Anuja
    Ji, Hanlee P.
    Quan Nguyen
    Powell, Joseph E.
    GENOME BIOLOGY, 2019, 20 (01)
  • [6] scPred: accurate supervised method for cell-type classification from single-cell RNA-seq data
    Jose Alquicira-Hernandez
    Anuja Sathe
    Hanlee P. Ji
    Quan Nguyen
    Joseph E. Powell
    Genome Biology, 20
  • [7] Identifying gene expression programs of cell-type identity and cellular activity with single-cell RNA-Seq
    Kotliar, Dylan
    Veres, Adrian
    Nagy, M. Aurel
    Tabrizi, Shervin
    Hodis, Eran
    Melton, Douglas A.
    Sabeti, Pardis C.
    ELIFE, 2019, 8
  • [8] scEVOLVE: cell-type incremental annotation without forgetting for single-cell RNA-seq data
    Zhai, Yuyao
    Chen, Liang
    Deng, Minghua
    BRIEFINGS IN BIOINFORMATICS, 2024, 25 (02)
  • [9] Methods of Identifying Cell Type from Single Cell RNA-seq Data and the Interpretation
    Zhang, Weiyu
    Jin, Weijia
    Yang, Jiaxi
    2020 5TH INTERNATIONAL CONFERENCE ON MECHANICAL, CONTROL AND COMPUTER ENGINEERING (ICMCCE 2020), 2020, : 1672 - 1679
  • [10] Probabilistic cell-type assignment of single-cell RNA-seq for tumor microenvironment profiling
    Allen W. Zhang
    Ciara O’Flanagan
    Elizabeth A. Chavez
    Jamie L. P. Lim
    Nicholas Ceglia
    Andrew McPherson
    Matt Wiens
    Pascale Walters
    Tim Chan
    Brittany Hewitson
    Daniel Lai
    Anja Mottok
    Clementine Sarkozy
    Lauren Chong
    Tomohiro Aoki
    Xuehai Wang
    Andrew P Weng
    Jessica N. McAlpine
    Samuel Aparicio
    Christian Steidl
    Kieran R. Campbell
    Sohrab P. Shah
    Nature Methods, 2019, 16 : 1007 - 1015