Yang Young Lu

发表

Ledidi: Designing genomic edits that induce functional activity

William Stafford Noble, Jacob M. Schreiber, Jacob Schreiber, 2020, bioRxiv.

SolidBin: improving metagenome binning with semi-supervised normalized cut

Zhengyang Wang, Shanfeng Zhu, Fengzhu Sun, 2019, Bioinform..

DeepPINK: reproducible feature selection in deep neural networks

William Stafford Noble, Yingying Fan, Yang Young Lu, 2018, NeurIPS.

CAFE: aCcelerated Alignment-FrEe sequence analysis

Jed A. Fuhrman, Jie Ren, Yang Young Lu, 2017, Nucleic Acids Res..

CRAFT: Compact genome Representation towards large-scale Alignment-Free daTabase

Ying Wang, Yiwen Wang, Fengzhu Sun, 2020 .

Robust saliency maps with distribution-preserving decoys

William Stafford Noble, Yang Young Lu, Wenbo Guo, 2019 .

Alignment-Free Sequence Analysis and Applications.

Gesine Reinert, Fengzhu Sun, Jie Ren, 2018, Annual review of biomedical data science.

COCACOLA: binning metagenomic contigs using sequence COmposition, read CoverAge, CO‐alignment and paired‐end read LinkAge

Ting Chen, Fengzhu Sun, Jed A. Fuhrman, 2016, Bioinform..

Improving contig binning of metagenomic data using \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document}$$ {d}_2^S $$\end{doc

Ying Wang, Fengzhu Sun, Yang Young Lu, 2017, BMC Bioinformatics.

CRAFT: Compact genome Representation towards large-scale Alignment-Free daTabase

Ying Wang, Yiwen Wang, Fengzhu Sun, 2020, bioRxiv.

ACE: Explaining cluster from an adversarial perspective

William Stafford Noble, Yang Young Lu, Giancarlo Bonora, 2021, ICML.

Predicting gene expression in the human malaria parasite Plasmodium falciparum

William Stafford Noble, Yang Young Lu, Kate B. Cook, 2018, bioRxiv.

VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data

Yang Young Lu, Fengzhu Sun, J. Fuhrman, 2017, Microbiome.

CAFE : aCcelerated Alignment-FrEe sequence analysis : Supplementary Material

Fengzhu Sun, Jed A. Fuhrman, Michael S. Waterman, 2017 .

Alignment-free \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{upgreek} \usepackage{mathrsfs} \setlength{\oddsidemargin}{-69pt} \begin{document} }{}$d_2^*$\end{document} oligonucleotide frequency dissi

Jie Ren, Fengzhu Sun, Yang Young Lu, 2016, Nucleic acids research.

Joint precursor elution profile inference via regression for peptide detection in data-independent acquisition mass spectra

William Stafford Noble, Yang Young Lu, J. Bilmes, 2018, bioRxiv.

Background Adjusted Alignment-Free Dissimilarity Measures Improve the Detection of Horizontal Gene Transfer

Yang Young Lu, Fengzhu Sun, Kujin Tang, 2018, Front. Microbiol..

SAINT: automatic taxonomy embedding and categorization by Siamese triplet network

Yang Young Lu, Ying Wang, Fang Zhang, 2021, bioRxiv.

Towards enhanced and interpretable clustering/classification in integrative genomics

Yang Young Lu, Fengzhu Sun, Jinchi Lv, 2017, Nucleic acids research.

Metric learning for comparing genomic data with triplet network

Yang Young Lu, Ying Wang, Fang Zhang, 2022, Briefings Bioinform..

The Crux toolkit for analysis of bottom-up tandem mass spectrometry proteomics data

William Stafford Noble, Yang Young Lu, Charles E. Grant, 2022, bioRxiv.

DIAmeter: matching peptides to data-independent acquisition mass spectrometry data

William Stafford Noble, Yang Young Lu, J. Bilmes, 2021, bioRxiv.

Improving contig binning of metagenomic data using d2S$$ {d}_2^S $$ oligonucleotide frequency dissimilarity

Yang Young Lu, Fengzhu Sun, Ying Wang, 2017, BMC Bioinformatics.

VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data

Yang Young Lu, Fengzhu Sun, J. Fuhrman, 2017, Microbiome.

Joint precursor elution profile inference via regression for peptide detection in data-independent acquisition mass spectra

William Stafford Noble, Yang Young Lu, J. Bilmes, 2018, bioRxiv.

Alignment-Free Sequence Analysis and Applications.

Yang Young Lu, G. Reinert, Fengzhu Sun, 2018, Annual Review of Biomedical Data Science.