郵箱: huangtao@sinh.ac.cn
電話: +86-21-54923269
所屬部門: 計(jì)算生物學(xué)重點(diǎn)實(shí)驗(yàn)室
2020-至???今：中國(guó)科學(xué)院上海營(yíng)養(yǎng)與健康研究所 青年研究員
2014-2020年：中國(guó)科學(xué)院上海生命科學(xué)研究院/上海營(yíng)養(yǎng)與健康研究所 副研究員
2012-2014年：美國(guó)紐約西奈山伊坎醫(yī)學(xué)院 博士后
2007-2012年：中國(guó)科學(xué)院上海生命科學(xué)研究院 生物信息學(xué) 博士
2003-2007年：華中科技大學(xué) 生物信息學(xué) 學(xué)士
生物醫(yī)學(xué)大數(shù)據(jù)的機(jī)器學(xué)習(xí)和網(wǎng)絡(luò)分析
1. 可解釋機(jī)器學(xué)習(xí)：采用機(jī)器學(xué)習(xí)的方法從生物醫(yī)學(xué)大數(shù)據(jù)中提取關(guān)鍵特征和分類規(guī)則，發(fā)現(xiàn)復(fù)雜數(shù)據(jù)背后隱藏的邏輯規(guī)律，進(jìn)而揭示生物學(xué)機(jī)制。
2. 多組學(xué)整合網(wǎng)絡(luò)構(gòu)建和分析：整合多組學(xué)數(shù)據(jù)構(gòu)建調(diào)控網(wǎng)絡(luò)，分析網(wǎng)絡(luò)拓?fù)浣Y(jié)構(gòu)，發(fā)現(xiàn)關(guān)鍵調(diào)控因子。
3. 基于網(wǎng)絡(luò)特征的機(jī)器學(xué)習(xí)：使用圖嵌入等方法，對(duì)網(wǎng)絡(luò)節(jié)點(diǎn)進(jìn)行向量化表示，以基于網(wǎng)絡(luò)的向量為特征進(jìn)行機(jī)器學(xué)習(xí)。
1.?Ding S#, Wang D#, Zhou X#, Chen L, Feng K, Xu X, Huang T*, Li Z*, Cai Y*. Predicting Heart Cell Types by Using Transcriptome Profiles and a Machine Learning Method. Life 2022, 12(2):228.
2.?Shi X#, Zhang L#, Li Y#, Xue J, Liang F, Ni H-W, Wang X, Cai Z, Shen L, Huang T*, He B*. Integrative Analysis of Bulk and Single-Cell RNA Sequencing Data Reveals Cell Types Involved in Heart Failure. Frontiers in Bioengineering and Biotechnology 2021, 9:779225.
3.?Zhang H, Wang S*, Huang T*. Identification of Chronic Hypersensitivity Pneumonitis Biomarkers with Machine Learning and Differential Co-expression Analysis. Current Gene Therapy 2021, 21(4):299-303.
4.?Xu Y#, Liu X#, Cao X#, Huang C#, Liu E#, Qian S#, Liu X#, Wu Y, Dong F, Qiu CW, Qiu J, Hua K, Su W, Wu J, Xu H, Han Y, Fu C, Yin Z, Liu M, Roepman R, Dietmann S, Virta M, Kengara F, Zhang Z, Zhang L, Zhao T, Dai J, Yang J, Lan L, Luo M, Liu Z, An T, Zhang B, He X, Cong S, Liu X, Zhang W, Lewis J, Tiedje J, Wang Q*, An Z*, Wang F*, Zhang L*, Huang T*, Lu C*, Cai Z*, Wang F*, Zhang J*. Artificial intelligence: A powerful paradigm for scientific research. Innovation (New York, NY) 2021, 2(4):100179.
5.?Li T#, Huang T#, Guo C, Wang A, Shi X, Mo X, Lu Q, Sun J, Hui T, Tian G, Wang L*, Yang J*. Genomic Variation, Origin Tracing and Vaccine Development of SARS-CoV-2: A Systematic Review. Innovation (New York, NY) 2021, 2(2):100116.
6.?Ren X#, Wang S#, Huang T*. Decipher the connections between proteins and phenotypes. Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics 2020, 1868(11):140503.
7.?Chen L, Pan X, Guo W, Gan Z, Zhang Y-H, Niu Z, Huang T*, Cai Y-D*. Investigating the gene expression profiles of cells in seven embryonic stages with machine learning algorithms. Genomics 2020, 112(3):2524-2534.
8.?Liu F#, Dong H#, Mei Z, Huang T*. Investigation of miRNA and mRNA co-expression network in ependymoma. Frontiers in Bioengineering and Biotechnology 2020, 8:177.
9.?Li J#, Lu L#, Zhang YH, Xu Y, Liu M, Feng K, Chen L, Kong X*, Huang T*, Cai YD*. Identification of leukemia stem cell expression signatures through Monte Carlo feature selection strategy and support vector machine. Cancer Gene Therapy 2020, 27(1):56-69.
10.?Chen L#, Pan X#, Zhang Y-H, Liu M, Huang T*, Cai Y-D*. Classification of widely and rarely expressed genes with recurrent neural network. Computational and Structural Biotechnology Journal 2019, 17:49-60.
11.?Ma Y-S#, Huang T#, Zhong X-M#, Zhang H-W#, Cong X-L, Xu H, Lu G-X, Yu F, Xue S-B, Lv Z-W, Fu D*. Proteogenomic characterization and comprehensive integrative genomic analysis of human colorectal cancer liver metastasis. Molecular Cancer 2018, 17(1):139.
12.?Shi X#, Huang T#, Wang J#, Liang Y, Gu C, Xu Y, Sun J, Lu Y, Sun K*, Chen S*, Yu Y*. Next-generation sequencing identifies novel genes with rare variants in total anomalous pulmonary venous connection. EBioMedicine 2018, 38:217-227.
13.?Cai L#*, Huang T#, Su J#, Zhang X, Chen W, Zhang F, He L*, Chou K-C. Implications of Newly Identified Brain eQTL Genes and Their Interactors in Schizophrenia. Molecular Therapy - Nucleic Acids 2018, 12:433-442.
14.?Li J, Huang T*. Predicting and analyzing early wake-up associated gene expressions by integrating GWAS and eQTL studies. Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease 2018, 1864(6 Pt B):2241-2246.
15.?Liu C#, Zhang Y-H#, Huang T*, Cai Y*. Identification of transcription factors that may reprogram lung adenocarcinoma. Artificial Intelligence in Medicine 2017, 83:52-57.
16.?Zhang N#, Wang M#, Zhang P, Huang T*. Classification of cancers based on copy number variation landscapes. Biochimica et Biophysica Acta (BBA) - General Subjects 2016, 1860(11, Part B):2750-2755.
17.?Zhou Y, Wu K, Jiang J, Huang J, Zhang P, Zhu Y, Hu G, Lang J, Shi Y, Hu L, Huang T*, Kong X*. Integrative Analysis Reveals Enhanced Regulatory Effects of Human Long Intergenic Non-Coding RNAs in Lung Adenocarcinoma. Journal of Genetics and Genomics 2015, 42(8):423-436.
18.?Huang T#*, Wang M#, Cai Y-D*. Analysis of the preferences for splice codes across tissues. Protein & Cell 2015, 6(12):904-907.
19.?Huang T, Wang C, Zhang G, Xie L*, Li Y*. SySAP: a system-level predictor of deleterious single amino acid polymorphisms. Protein & Cell 2012, 3(1):38-43.
20.?Huang T, Chen L, Liu XJ*, Cai YD*. Predicting triplet of transcription factor - mediating enzyme - target gene by functional profiles. Neurocomputing 2011, 74(17):3677-3681.
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