Inflated performance measures in enhancer-promoter interaction-prediction methods

被引：33
|
作者：
Cao, Fan [1 ]
Fullwood, Melissa J. [1 ,2 ,3 ]
机构：
[1] Natl Univ Singapore, Canc Sci Inst Singapore, Singapore, Singapore
[2] Nanyang Technol Univ, Sch Biol Sci, Singapore, Singapore
[3] ASTAR, Inst Mol & Cell Biol, Singapore, Singapore
来源：
NATURE GENETICS | 2019年 / 51卷 / 08期
基金：
新加坡国家研究基金会;
关键词：
FEATURES;
D O I：
10.1038/s41588-019-0434-7
中图分类号：
Q3 [遗传学];
学科分类号：
071007 ; 090102 ;
摘要：
引用
收藏
页码：1196 / 1198
页数：3
相关论文
共 50 条
  • [31] CW198 acts as a genetic insulator to block enhancer-promoter interaction in plants
    Li Jiang
    Yue Liu
    Zhifeng Wen
    Yingjun Yang
    Stacy D. Singer
    Dennis Bennett
    Wenying Xu
    Zhen Su
    Zhifang Yu
    Josh Cohn
    Xi Luo
    Zhongchi Liu
    Hyunsook Chae
    Qiudeng Que
    Zongrang Liu
    Transgenic Research, 2022, 31 (6) : 647 - 660
  • [32] Differential regulation of alternative promoters emerges from unified kinetics of enhancer-promoter interaction
    Jingyao Wang
    Shihe Zhang
    Hongfang Lu
    Heng Xu
    Nature Communications, 13
  • [33] TF-EPI: an interpretable enhancer-promoter interaction detection method based on Transformer
    Liu, Bowen
    Zhang, Weihang
    Zeng, Xin
    Loza, Martin
    Park, Sung-Joon
    Nakai, Kenta
    FRONTIERS IN GENETICS, 2024, 15
  • [34] EPIsHilbert: Prediction of Enhancer-Promoter Interactions via Hilbert Curve Encoding and Transfer Learning
    Zhang, Mingyang
    Hu, Yujia
    Zhu, Min
    GENES, 2021, 12 (09)
  • [35] Adipose cis-eQTL variants at enhancer-promoter interaction circuits regulate obesity genes
    Pan, D. Z.
    Garske, K.
    Ko, A.
    Bagat, Y.
    Alvarez, M.
    Raulerson, C. K.
    Sinsheimer, J.
    Mohlke, K. L.
    Laakso, M.
    Pajukanta, P.
    EUROPEAN JOURNAL OF HUMAN GENETICS, 2018, 26 : 108 - 108
  • [36] Enhancer-promoter interaction maps provide insights into skeletal muscle-related traits in pig genome
    Jingjin Li
    Yue Xiang
    Lu Zhang
    Xiaolong Qi
    Zhuqing Zheng
    Peng Zhou
    Zhenshuang Tang
    Yi Jin
    Qiulin Zhao
    Yuhua Fu
    Yunxia Zhao
    Xinyun Li
    Liangliang Fu
    Shuhong Zhao
    BMC Biology, 20
  • [37] Non-local modeling of enhancer-promoter interactions, a correspondence on "LOCO-EPI: Leave-one-chromosome-out (LOCO) as a benchmarking paradigm for deep learning based prediction of enhancer-promoter interactions"
    Beer, Michael A.
    APPLIED INTELLIGENCE, 2025, 55 (06)
  • [38] TAD-dependent sub-TAD is required for enhancer-promoter interaction enabling the β-globin transcription
    Lee, Dasoul
    Kang, Jin
    Kim, Aeri
    FASEB JOURNAL, 2024, 38 (22):
  • [39] Multiple CTCF sites cooperate with each other to maintain a TAD for enhancer-promoter interaction in the β-globin locus
    Kang, Jin
    Kim, Yea Woon
    Park, Seongwon
    Kang, Yujin
    Kim, AeRi
    FASEB JOURNAL, 2021, 35 (08):
  • [40] Non-local modeling of enhancer-promoter interactions, a correspondence on “LOCO-EPI: Leave-one-chromosome-out (LOCO) as a benchmarking paradigm for deep learning based prediction of enhancer-promoter interactions”Non-local modeling of enhancer-promoter interactions, a correspondence on “LOCO-EPI: Leave-one-chromosome-out (LOCO) as a benchmarking paradigm for deep learning based prediction of enhancer-promoter interactions”M. A. Beer
    Michael A. Beer
    Applied Intelligence, 2025, 55 (7)
12345