Yufei Huang, Ph.D. - Publications

Affiliations: 
2001 Stony Brook University, Stony Brook, NY, United States 
Area:
Signal analysis, modeling, and processing; Monte Carlo methods; wireless communications and sensor networks

124 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Chiu YC, Chen HH, Zhang T, Zhang S, Gorthi A, Wang LJ, Huang Y, Chen Y. Correction to: Predicting drug response of tumors from integrated genomic profiles by deep neural networks. Bmc Medical Genomics. 12: 119. PMID 31405368 DOI: 10.1186/s12920-019-0569-5  0.56
2019 Tang Y, Chen K, Wu X, Wei Z, Zhang SY, Song B, Zhang SW, Huang Y, Meng J. DRUM: Inference of Disease-Associated mA RNA Methylation Sites From a Multi-Layer Heterogeneous Network. Frontiers in Genetics. 10: 266. PMID 31001320 DOI: 10.3389/fgene.2019.00266  0.56
2019 Chiu YC, Chen HH, Zhang T, Zhang S, Gorthi A, Wang LJ, Huang Y, Chen Y. Predicting drug response of tumors from integrated genomic profiles by deep neural networks. Bmc Medical Genomics. 12: 18. PMID 30704458 DOI: 10.1186/s12920-018-0460-9  0.56
2019 Zhang SY, Zhang SW, Fan XN, Meng J, Chen Y, Gao SJ, Huang Y. Global analysis of N6-methyladenosine functions and its disease association using deep learning and network-based methods. Plos Computational Biology. 15: e1006663. PMID 30601803 DOI: 10.1371/journal.pcbi.1006663  0.56
2018 Chen HH, Chiu YC, Zhang T, Zhang S, Huang Y, Chen Y. GSAE: an autoencoder with embedded gene-set nodes for genomics functional characterization. Bmc Systems Biology. 12: 142. PMID 30577835 DOI: 10.1186/s12918-018-0642-2  0.56
2018 Mostavi M, Salekin S, Huang Y. Deep-2'-O-Me: Predicting 2'-O-methylation sites by Convolutional Neural Networks. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2018: 2394-2397. PMID 30440889 DOI: 10.1109/EMBC.2018.8512780  0.64
2018 Panneerdoss S, Eedunuri VK, Yadav P, Timilsina S, Rajamanickam S, Viswanadhapalli S, Abdelfattah N, Onyeagucha BC, Cui X, Lai Z, Mohammad TA, Gupta YK, Huang TH, Huang Y, Chen Y, et al. Cross-talk among writers, readers, and erasers of mA regulates cancer growth and progression. Science Advances. 4: eaar8263. PMID 30306128 DOI: 10.1126/sciadv.aar8263  0.56
2018 Salekin S, Zhang JM, Huang Y. Base-pair resolution detection of transcription factor binding site by deep deconvolutional network. Bioinformatics (Oxford, England). PMID 29757349 DOI: 10.1093/bioinformatics/bty383  0.64
2018 Cui X, Zhang L, Meng J, Rao MK, Chen Y, Huang Y. MeTDiff: A Novel Differential RNA Methylation Analysis for MeRIP-Seq Data. Ieee/Acm Transactions On Computational Biology and Bioinformatics. 15: 526-534. PMID 29610101 DOI: 10.1109/TCBB.2015.2403355  0.56
2017 Tan B, Liu H, Zhang S, da Silva SR, Zhang L, Meng J, Cui X, Yuan H, Sorel O, Zhang SW, Huang Y, Gao SJ. Viral and cellular N(6)-methyladenosine and N(6),2'-O-dimethyladenosine epitranscriptomes in the KSHV life cycle. Nature Microbiology. PMID 29109479 DOI: 10.1038/s41564-017-0056-8  0.56
2017 Liu L, Zhang SW, Huang Y, Meng J. QNB: differential RNA methylation analysis for count-based small-sample sequencing data with a quad-negative binomial model. Bmc Bioinformatics. 18: 387. PMID 28859631 DOI: 10.1186/s12859-017-1808-4  0.56
2016 Zhang S, Zhang S, Liu L, Meng J, Huang Y. m6A-Driver: Identifying Context-Specific mRNA m6A Methylation-Driven Gene Interaction Networks. Plos Computational Biology. 12: e1005287. PMID 28027310 DOI: 10.1371/journal.pcbi.1005287  0.56
2016 Zhao Z, Liu Y, Huang Y, Huang K, Ruan J. Advancing Systems Biology in the International Conference on Intelligent Biology and Medicine (ICIBM) 2015. Bmc Systems Biology. 10: 61. PMID 27587087 DOI: 10.1186/s12918-016-0305-0  0.88
2016 Huang K, Liu Y, Huang Y, Li L, Cooper L, Ruan J, Zhao Z. Intelligent biology and medicine in 2015: advancing interdisciplinary education, collaboration, and data science. Bmc Genomics. 17: 524. PMID 27556295 DOI: 10.1186/s12864-016-2893-x  0.88
2016 Cui X, Meng J, Zhang S, Chen Y, Huang Y. A novel algorithm for calling mRNA m6A peaks by modeling biological variances in MeRIP-seq data. Bioinformatics (Oxford, England). 32: i378-i385. PMID 27307641 DOI: 10.1093/bioinformatics/btw281  0.88
2016 Cui X, Wei Z, Zhang L, Liu H, Sun L, Zhang SW, Huang Y, Meng J. Guitar: An R/Bioconductor Package for Gene Annotation Guided Transcriptomic Analysis of RNA-Related Genomic Features. Biomed Research International. 2016: 8367534. PMID 27239475 DOI: 10.1155/2016/8367534  0.56
2016 Wang X, Wang M, Zhang Y, Miao X, Huang Y, Zhang J, Sun L. Electrochemical biosensor based on enzyme substrate as a linker: Application for aldolase activity with pectin-thionine complex as recognization element and signal amplification probe. Biosensors & Bioelectronics. 83: 91-96. PMID 27107145 DOI: 10.1016/j.bios.2016.04.009  0.88
2016 Li L, Sun W, Zhang Z, Huang Y. Time-staggered delivery of docetaxel and H1-S6A,F8A peptide for sequential dual-strike chemotherapy through tumor priming and nuclear targeting. Journal of Controlled Release : Official Journal of the Controlled Release Society. PMID 27098443 DOI: 10.1016/j.jconrel.2016.04.021  0.32
2016 Liu L, Zhang SW, Gao F, Zhang Y, Huang Y, Chen R, Meng J. DRME: count-based differential RNA methylation analysis at small sample size scenario. Analytical Biochemistry. PMID 26851340 DOI: 10.1016/j.ab.2016.01.014  0.56
2016 Zhang J, Wang M, Cheng F, Dai C, Sun Y, Lu J, Huang Y, Li M, He Y, Wang F, Fan B. Identification of microRNAs correlated with citrus granulation based on bioinformatics and molecular biology analysis Postharvest Biology and Technology. 118: 59-67. DOI: 10.1016/j.postharvbio.2016.03.010  0.88
2016 Huang Y, Li H, Zuo M, Tao L, Wang W, Zhang J, Tang Q, Bai P. Corrosion resistance of sintered NdFeB coated with SiC/Al bilayer thin films by magnetron sputtering Journal of Magnetism and Magnetic Materials. 409: 39-44. DOI: 10.1016/j.jmmm.2016.02.006  0.88
2016 Lu L, Jia Y, Ye XX, Luo M, Song F, Huang Y, Zhou X, Li Z, Jiang Z. Local structure study of tellurium corrosion of nickel alloy by X-ray absorption spectroscopy Corrosion Science. 108: 169-172. DOI: 10.1016/j.corsci.2016.03.006  0.32
2016 Zhang Y, Huang Y, Chen H, Huang Z, Yang Y, Xiao P, Zhou Y, Chen Y. Composition and structure control of ultralight graphene foam for high-performance microwave absorption Carbon. 105: 438-447. DOI: 10.1016/j.carbon.2016.04.070  0.56
2016 Jin VX, Huang Y, Ruan J, Zhao Z. Editorial International Journal of Computational Biology and Drug Design. 9: 1-5.  0.88
2015 Zhang L, Liu H, Huang Y, Wang X, Chen Y, Meng J. Cancer Progression Prediction Using Gene Interaction Regularized Elastic Net. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 28055897 DOI: 10.1109/TCBB.2015.2511758  0.56
2015 Ma X, Zhu Y, Huang Y, Tegeler T, Gao SJ, Zhang J. Quantitative Proteomic Approach for MicroRNA Target Prediction Based on (18)O/(16)O Labeling. Cancer Informatics. 14: 163-173. PMID 27980386 DOI: 10.4137/CIN.S30563  0.88
2015 Zhang L, Liu H, Huang Y, Wang X, Chen Y, Meng J. Cancer Progression Prediction Using Gene Interaction Regularized Elastic Net. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. PMID 26841407 DOI: 10.1109/TCBB.2015.2511758  0.56
2015 Zhao Z, Jin VX, Huang Y, Guda C, Ruan J. Frontiers in Integrative Genomics and Translational Bioinformatics. Biomed Research International. 2015: 725491. PMID 26605336 DOI: 10.1155/2015/725491  0.88
2015 Zhang YC, Zhang SW, Liu L, Liu H, Zhang L, Cui X, Huang Y, Meng J. Spatially Enhanced Differential RNA Methylation Analysis from Affinity-Based Sequencing Data with Hidden Markov Model. Biomed Research International. 2015: 852070. PMID 26301253 DOI: 10.1155/2015/852070  0.88
2015 Chen HI, Liu Y, Zou Y, Lai Z, Sarkar D, Huang Y, Chen Y. Differential expression analysis of RNA sequencing data by incorporating non-exonic mapped reads. Bmc Genomics. 16: S14. PMID 26099631 DOI: 10.1186/1471-2164-16-S7-S14  0.88
2015 Ruan J, Jin V, Huang Y, Xu H, Edwards JS, Chen Y, Zhao Z. Education, collaboration, and innovation: intelligent biology and medicine in the era of big data. Bmc Genomics. 16: S1. PMID 26099197 DOI: 10.1186/1471-2164-16-S7-S1  0.56
2015 Cui X, Meng J, Rao MK, Chen Y, Huang Y. HEPeak: an HMM-based exome peak-finding package for RNA epigenome sequencing data. Bmc Genomics. 16: S2. PMID 25917296 DOI: 10.1186/1471-2164-16-S4-S2  0.56
2015 Liu H, Flores MA, Meng J, Zhang L, Zhao X, Rao MK, Chen Y, Huang Y. MeT-DB: a database of transcriptome methylation in mammalian cells. Nucleic Acids Research. 43: D197-203. PMID 25378335 DOI: 10.1093/nar/gku1024  0.88
2015 Liu L, Zhang SW, Zhang YC, Liu H, Zhang L, Chen R, Huang Y, Meng J. Decomposition of RNA methylome reveals co-methylation patterns induced by latent enzymatic regulators of the epitranscriptome. Molecular Biosystems. 11: 262-74. PMID 25370990 DOI: 10.1039/c4mb00604f  0.88
2015 Zhou Y, Chen HI, Lin AL, Dang H, Haack K, Cole SA, Huang Y, Yu H, Chen Y, Yeh CK. Early gene expression in salivary gland after isoproterenol treatment. Journal of Cellular Biochemistry. 116: 431-7. PMID 25336019 DOI: 10.1002/jcb.24995  0.88
2015 Hajinoroozi M, Jung TP, Lin CT, Huang Y. Feature extraction with deep belief networks for driver's cognitive states prediction from EEG data 2015 Ieee China Summit and International Conference On Signal and Information Processing, Chinasip 2015 - Proceedings. 812-815. DOI: 10.1109/ChinaSIP.2015.7230517  0.88
2015 Cui X, Meng J, Zhang S, Huang Y. Modeling of replicates variances for detecting RNA methylation site in MERIP-SEQ data 2015 Ieee China Summit and International Conference On Signal and Information Processing, Chinasip 2015 - Proceedings. 802-806. DOI: 10.1109/ChinaSIP.2015.7230515  0.88
2015 Cui X, Wei Z, Zhang L, Liu H, Sun L, Zhang SW, Huang Y, Meng J. Sketching the distribution of transcriptomic features on RNA transcripts with Travis coordinates Proceedings - 2015 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2015. 1536-1542. DOI: 10.1109/BIBM.2015.7359904  0.88
2015 Zhang J, Huang Y, Djuric PM. Multiuser detection with particle filtering European Signal Processing Conference. 2015.  0.88
2015 Djuric PM, Zhang J, Ghirmai T, Huang Y, Kotecha JH. Applications of particle filtering to communications: A review European Signal Processing Conference. 2015.  0.88
2015 Huang Y, Djuric PM. A blind particle filtering detector for joint channel estimation, tracking and data detection over flat fading channels European Signal Processing Conference. 2015.  0.88
2015 Huang Y, Djurić PM. Choosing priors for an important class of signal processing problems European Signal Processing Conference. 2015.  0.88
2014 Zhang SW, Zhang TH, Zhang JN, Huang Y. Prediction of Signal Peptide Cleavage Sites with Subsite-Coupled and Template Matching Fusion Algorithm. Molecular Informatics. 33: 230-9. PMID 27485691 DOI: 10.1002/minf.201300077  0.4
2014 Huang Y, Chen Y, Qian X. Selected Articles from the 2012 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS 2012). Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 11: 981-3. PMID 26605382 DOI: 10.1109/TCBB.2014.2353218  0.88
2014 Mao Z, Ma C, Huang TH, Chen Y, Huang Y. BIMMER: a novel algorithm for detecting differential DNA methylation regions from MBDCap-seq data. Bmc Bioinformatics. 15: S6. PMID 25474268 DOI: 10.1186/1471-2105-15-S12-S6  0.88
2014 Flores M, Chen Y, Huang Y. TraceRNA: a web application for competing endogenous RNA exploration. Circulation. Cardiovascular Genetics. 7: 548-57. PMID 25140062 DOI: 10.1161/CIRCGENETICS.113.000125  0.88
2014 McDermott JE, Huang Y, Zhang B, Xu H, Zhao Z. Integrative genomics and computational systems medicine. Biomed Research International. 2014: 945253. PMID 25025078 DOI: 10.1155/2014/945253  0.88
2014 Meng J, Lu Z, Liu H, Zhang L, Zhang S, Chen Y, Rao MK, Huang Y. A protocol for RNA methylation differential analysis with MeRIP-Seq data and exomePeak R/Bioconductor package. Methods (San Diego, Calif.). 69: 274-81. PMID 24979058 DOI: 10.1016/j.ymeth.2014.06.008  0.88
2014 Yao WX, Cordova A, Huang Y, Wang Y, Lu X. Bilateral transfer for learning to control timing but not for learning to control fine force. Perceptual and Motor Skills. 118: 400-10. PMID 24897876 DOI: 10.2466/23.25.PMS.118k19w1  0.88
2014 Zhao Z, Zhang B, Huang Y, Xu H, McDermott JE. Computational methods for omics data. International Journal of Computational Biology and Drug Design. 7: 97-101. PMID 24878722 DOI: 10.1504/IJCBDD.2014  0.88
2014 Zhu Y, Huang Y, Jung JU, Lu C, Gao SJ. Viral miRNA targeting of bicistronic and polycistronic transcripts. Current Opinion in Virology. 7: 66-72. PMID 24821460 DOI: 10.1016/j.coviro.2014.04.004  0.88
2014 Bai Z, Huang Y, Li W, Zhu Y, Jung JU, Lu C, Gao SJ. Genomewide mapping and screening of Kaposi's sarcoma-associated herpesvirus (KSHV) 3' untranslated regions identify bicistronic and polycistronic viral transcripts as frequent targets of KSHV microRNAs. Journal of Virology. 88: 377-92. PMID 24155407 DOI: 10.1128/JVI.02689-13  0.88
2014 Meng J, Meriño LM, Robbins K, Huang Y. Classification of imperfectly time-locked image RSVP events with EEG device. Neuroinformatics. 12: 261-75. PMID 24037139 DOI: 10.1007/s12021-013-9203-4  0.88
2014 Zhang YC, Zhang SW, Liu L, Zhang L, Liu H, Cui X, Huang Y, Meng J. Differential analysis of RNA methylome with improved spatial resolution 2014 Ieee Global Conference On Signal and Information Processing, Globalsip 2014. 1372-1375. DOI: 10.1109/GlobalSIP.2014.7032350  0.88
2014 Zhang L, Meng J, Liu H, Cui X, Zhang SW, Chen Y, Huang Y. Detecting differentially methylated mRNA from MeRIP-Seq with likelihood ratio test 2014 Ieee Global Conference On Signal and Information Processing, Globalsip 2014. 1368-1371. DOI: 10.1109/GlobalSIP.2014.7032349  0.88
2014 Mao Z, Lawhern V, Merino LM, Ball K, Deng L, Lance BJ, Robbins K, Huang Y. Classification of non-time-locked rapid serial visual presentation events for brain-computer interaction using deep learning 2014 Ieee China Summit and International Conference On Signal and Information Processing, Ieee Chinasip 2014 - Proceedings. 520-524. DOI: 10.1109/ChinaSIP.2014.6889297  0.88
2014 Zhang SW, Zhang TH, Zhang JN, Huang Y. Prediction of signal peptide cleavage sites with subsite-coupled and template matching fusion algorithm Molecular Informatics. 33: 230-239. DOI: 10.1002/minf.201300077  0.88
2013 Ma C, Chen HI, Flores M, Huang Y, Chen Y. BRCA-Monet: a breast cancer specific drug treatment mode-of-action network for treatment effective prediction using large scale microarray database. Bmc Systems Biology. 7: S5. PMID 24564956 DOI: 10.1186/1752-0509-7-S5-S5  0.88
2013 Zhang B, Huang Y, McDermott JE, Posey RH, Xu H, Zhao Z. Interdisciplinary dialogue for education, collaboration, and innovation: intelligent Biology and Medicine in and beyond 2013. Bmc Genomics. 14: S1. PMID 24564388 DOI: 10.1186/1471-2164-14-S8-S1  0.88
2013 Moody R, Zhu Y, Huang Y, Cui X, Jones T, Bedolla R, Lei X, Bai Z, Gao SJ. KSHV microRNAs mediate cellular transformation and tumorigenesis by redundantly targeting cell growth and survival pathways. Plos Pathogens. 9: e1003857. PMID 24385912 DOI: 10.1371/journal.ppat.1003857  0.88
2013 Xuan P, Han K, Guo M, Guo Y, Li J, Ding J, Liu Y, Dai Q, Li J, Teng Z, Huang Y. Prediction of microRNAs associated with human diseases based on weighted k most similar neighbors. Plos One. 8: e70204. PMID 23950912 DOI: 10.1371/journal.pone.0070204  0.88
2013 Nounou M, Nounou H, Serpedin E, Datta A, Huang Y. Computational and statistical approaches for modeling of proteomic and genomic networks. Advances in Bioinformatics. 2013: 561968. PMID 23762047 DOI: 10.1155/2013/561968  0.88
2013 Sanchez-Diaz PC, Hsiao TH, Chang JC, Yue D, Tan MC, Chen HI, Tomlinson GE, Huang Y, Chen Y, Hung JY. De-regulated microRNAs in pediatric cancer stem cells target pathways involved in cell proliferation, cell cycle and development. Plos One. 8: e61622. PMID 23613887 DOI: 10.1371/journal.pone.0061622  0.88
2013 Meng J, Cui X, Rao MK, Chen Y, Huang Y. Exome-based analysis for RNA epigenome sequencing data. Bioinformatics (Oxford, England). 29: 1565-7. PMID 23589649 DOI: 10.1093/bioinformatics/btt171  0.88
2013 Flores M, Hsiao TH, Chiu YC, Chuang EY, Huang Y, Chen Y. Gene regulation, modulation, and their applications in gene expression data analysis. Advances in Bioinformatics. 2013: 360678. PMID 23573084 DOI: 10.1155/2013/360678  0.88
2013 Zhao Z, Xu H, Zhang B, Huang Y. Advances in intelligent biology and medicine. International Journal of Computational Biology and Drug Design. 6: 1-4. PMID 23428469 DOI: 10.1504/IJCBDD.2013  0.88
2013 Daali AW, Huang Y, Jamshidi M. A system based approach to construct a Kaposi sarcoma-associated herpesvirus (KSHV) specific pathway crosstalk network Proceedings of 2013 8th International Conference On System of Systems Engineering: Sose in Cloud Computing and Emerging Information Technology Applications, Sose 2013. 273-278. DOI: 10.1109/SYSoSE.2013.6575279  0.88
2013 Merino LM, Meng J, Gordon S, Lance BJ, Johnson T, Paul V, Robbins K, Vettel JM, Huang Y. A bag-of-words model for task-load prediction from EEG in complex environments Icassp, Ieee International Conference On Acoustics, Speech and Signal Processing - Proceedings. 1227-1231. DOI: 10.1109/ICASSP.2013.6637846  0.88
2013 Cui X, Meng J, Rao MK, Chen Y, Huang Y. Differential analysis of rna methylation sequencing data 2013 Ieee Global Conference On Signal and Information Processing, Globalsip 2013 - Proceedings. 41-42. DOI: 10.1109/GlobalSIP.2013.6736806  0.88
2013 Ahmed S, Mauricio Merino L, Mao Z, Meng J, Robbins K, Huang Y. A Deep Learning method for classification of images RSVP events with EEG data 2013 Ieee Global Conference On Signal and Information Processing, Globalsip 2013 - Proceedings. 33-36. DOI: 10.1109/GlobalSIP.2013.6736804  0.88
2013 Flores M, Huang Y, Chen Y. NetceRNA: An algorithm for construction of phenotype-specific regulation networks via competing endogenous RNAs Proceedings - Ieee International Workshop On Genomic Signal Processing and Statistics. 24-27. DOI: 10.1109/GENSIPS.2013.6735921  0.88
2013 Meng J, Cui X, Liu H, Zhang L, Zhang S, Rao MK, Chen Y, Huang Y. Unveiling the dynamics in RNA epigenetic regulations Proceedings - 2013 Ieee International Conference On Bioinformatics and Biomedicine, Ieee Bibm 2013. 139-144. DOI: 10.1109/BIBM.2013.6732477  0.88
2013 Mao Z, Huang THM, Chen Y, Huang Y. BIMMER: A Bi-layer hidden Markov model for differential methylation analysis Proceedings - 2013 Ieee International Conference On Bioinformatics and Biomedicine, Ieee Bibm 2013. 99-102. DOI: 10.1109/BIBM.2013.6732470  0.88
2013 Zhao Z, Xu H, Zhang B, Huang Y. Editorial International Journal of Computational Biology and Drug Design. 6: 1-4.  0.88
2013 Sanchez-Castillo M, Tienda-Luna I, Blanco D, Carrion-Perez MC, Huang Y. Bayesian sparse factor model for transcriptional regulatory networks inference European Signal Processing Conference 0.88
2012 Yue D, Guo M, Chen Y, Huang Y. A Bayesian decision fusion approach for microRNA target prediction. Bmc Genomics. 13: S13. PMID 23282032 DOI: 10.1186/1471-2164-13-S8-S13  0.88
2012 Zhao Z, Huang Y, Zhang B, Shyr Y, Xu H. Genomics in 2012: challenges and opportunities in the next generation sequencing era. Bmc Genomics. 13: S1. PMID 23281891 DOI: 10.1186/1471-2164-13-S8-S1  0.88
2012 Huang Y, Zhao Z, Xu H, Shyr Y, Zhang B. Advances in systems biology: computational algorithms and applications. Bmc Systems Biology. 6: S1. PMID 23281622 DOI: 10.1186/1752-0509-6-S3-S1  0.88
2012 Pal R, Huang Y, Chen Y. Selected articles from the IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS'2011). Bmc Genomics. 13: S1. PMID 23134705 DOI: 10.1186/1471-2164-13-S6-S1  0.88
2012 Zhang L, Meng J, Liu H, Huang Y. A nonparametric Bayesian approach for clustering bisulfate-based DNA methylation profiles. Bmc Genomics. 13: S20. PMID 23134689 DOI: 10.1186/1471-2164-13-S6-S20  0.88
2012 Meng J, Meriño LM, Bigdely Shamlo N, Makeig S, Robbins K, Huang Y. Characterization and robust classification of EEG signal from image RSVP events with independent time-frequency features. Plos One. 7: e44464. PMID 23028544 DOI: 10.1371/journal.pone.0044464  0.88
2012 Lei X, Zhu Y, Jones T, Bai Z, Huang Y, Gao SJ. A Kaposi's sarcoma-associated herpesvirus microRNA and its variants target the transforming growth factor β pathway to promote cell survival. Journal of Virology. 86: 11698-711. PMID 22915806 DOI: 10.1128/JVI.06855-11  0.88
2012 Jones T, Ye F, Bedolla R, Huang Y, Meng J, Qian L, Pan H, Zhou F, Moody R, Wagner B, Arar M, Gao SJ. Direct and efficient cellular transformation of primary rat mesenchymal precursor cells by KSHV. The Journal of Clinical Investigation. 122: 1076-81. PMID 22293176 DOI: 10.1172/JCI58530  0.88
2012 Meng J, Huang Y. Biclustering of time series microarray data. Methods in Molecular Biology (Clifton, N.J.). 802: 87-100. PMID 22130875 DOI: 10.1007/978-1-61779-400-1_6  0.88
2012 Nguyen N, Chiao YA, Huang Y, Gao SJ, Lindsey M, Chen Y, Jin Y. Temporal clustering of gene expression patterns using short-time segments International Journal of Functional Informatics and Personalised Medicine. 4: 32-46. DOI: 10.1504/IJFIPM.2012.050419  0.88
2012 Meng J, Chen Y, Huang Y. Uncover context-specific gene regulation by transcription factors and microRNAs using Bayesian sparse nonnegative factor regression Journal of Biological Systems. 20: 377-402. DOI: 10.1142/S0218339012400037  0.88
2012 Sanchez-Castillo M, Meng J, Tienda-Luna IM, Huang Y. Basis-expansion factor models for uncovering transcription factor regulatory network 2012 Ieee Statistical Signal Processing Workshop, Ssp 2012. 700-703. DOI: 10.1109/SSP.2012.6319799  0.88
2012 Meng J, Meriño LM, Robbins K, Huang Y. Exploiting correlated discriminant features in time frequency and space for characterization and robust classification of image RSVP events with EEG data 2012 Ieee Statistical Signal Processing Workshop, Ssp 2012. 668-671. DOI: 10.1109/SSP.2012.6319790  0.88
2012 Meng J, Mauricio Meriño L, Robbins K, Huang Y. Classification of EEG recordings without perfectly time-locked events 2012 Ieee Statistical Signal Processing Workshop, Ssp 2012. 444-447. DOI: 10.1109/SSP.2012.6319727  0.88
2012 Yue D, Meng J, Lu M, Chen CLP, Guo M, Huang Y. Understanding MicroRNA regulation: A computational perspective Ieee Signal Processing Magazine. 29: 77-88. DOI: 10.1109/MSP.2011.943013  0.88
2012 Flores M, Huang Y. A new algorithm for predicting competing endogenous RNAs Proceedings - Ieee International Workshop On Genomic Signal Processing and Statistics. 118-121. DOI: 10.1109/GENSIPS.2012.6507743  0.88
2012 Zhang L, Liu H, Hsiao TH, Chen Y, Huang Y. An investigation of clinical outcome prediction from integrative genomic profiles in ovarian cancer Proceedings - Ieee International Workshop On Genomic Signal Processing and Statistics. 103-106. DOI: 10.1109/GENSIPS.2012.6507739  0.88
2012 Tienda-Luna IM, Ruiz DP, Huang Y, Carrión MC. Iterative decoding in Factor Graph representation using Particle Filtering Digital Signal Processing: a Review Journal. 22: 212-218. DOI: 10.1016/j.dsp.2011.07.003  0.88
2011 Ghasemi O, Lindsey ML, Yang T, Nguyen N, Huang Y, Jin YF. Bayesian parameter estimation for nonlinear modelling of biological pathways. Bmc Systems Biology. 5: S9. PMID 22784628 DOI: 10.1186/1752-0509-5-S3-S9  0.88
2011 Meng J, Zhang JM, Chen Y, Huang Y. Bayesian non-negative factor analysis for reconstructing transcription factor mediated regulatory networks. Proteome Science. 9: S9. PMID 22166063 DOI: 10.1186/1477-5956-9-S1-S9  0.88
2011 Boutz DR, Collins PJ, Suresh U, Lu M, Ramírez CM, Fernández-Hernando C, Huang Y, Abreu Rde S, Le SY, Shapiro BA, Liu AM, Luk JM, Aldred SF, Trinklein ND, Marcotte EM, et al. Two-tiered approach identifies a network of cancer and liver disease-related genes regulated by miR-122. The Journal of Biological Chemistry. 286: 18066-78. PMID 21402708 DOI: 10.1074/jbc.M110.196451  0.88
2011 Meng J, Zhang J, Chen Y, Huang Y. Bayesian non-negative factor analysis for reconstructing transcriptional regulatory network Ieee Workshop On Statistical Signal Processing Proceedings. 361-364. DOI: 10.1109/SSP.2011.5967704  0.88
2011 Meng J, Chen HI, Zhang J, Chen Y, Huang Y. Uncover transcription factor mediated gene regulations using Bayesian nonnegative factor models 2011 Ieee International Conference On Signal Processing, Communications and Computing, Icspcc 2011. DOI: 10.1109/ICSPCC.2011.6061806  0.88
2011 Meng J, Chen HI, Zhang J, Chen Y, Huang Y. Uncover cooperative gene regulations by microRNAs and transcription factors in glioblastoma using a nonnegative hybrid factor model Icassp, Ieee International Conference On Acoustics, Speech and Signal Processing - Proceedings. 6012-6015. DOI: 10.1109/ICASSP.2011.5947732  0.88
2011 Ma C, Huang Y, Harry HI, Chen Y. Comprehensive investigation of connectivity map data-towards a drug mode of action network for personalized thnerapy 2011 Ieee International Conference On Bioinformatics and Biomedicine Workshops, Bibmw 2011. 1045-1047. DOI: 10.1109/BIBMW.2011.6112555  0.88
2011 Hsiao TH, Chen HIH, Sanchez-Diaz PC, Hung JY, Chen Y, Huang Y. Gene sets enrichment analysis of miRNA expression profile 2011 Ieee International Conference On Bioinformatics and Biomedicine Workshops, Bibmw 2011. 449-454. DOI: 10.1109/BIBMW.2011.6112413  0.88
2011 Yue D, Chen Y, Gao SJ, Huang Y. Computational prediction of microRNA regulatory pathways Proceedings - Ieee International Workshop On Genomic Signal Processing and Statistics. 158-161. DOI: 10.1109/BIBMW.2010.5703833  0.88
2011 Lu M, Chen CLP, Huang Y. Beyond seed match: Improving miRNA target prediction using PAR-CLIP data Proceedings - Ieee International Workshop On Genomic Signal Processing and Statistics. 127-130.  0.88
2011 Zhang L, Meng J, Liu H, Huang Y. Clustering DNA methylation expressions using nonparametric beta mixture model Proceedings - Ieee International Workshop On Genomic Signal Processing and Statistics. 170-173.  0.88
2010 Zhang J, Zhou X, Wang H, Suffredini A, Zhang L, Huang Y, Wong S. Bayesian Peptide Peak Detection for High Resolution TOF Mass Spectrometry. Ieee Transactions On Signal Processing : a Publication of the Ieee Signal Processing Society. 58: 5883-5894. PMID 21544266 DOI: 10.1109/TSP.2010.2065226  0.88
2010 Lei X, Bai Z, Ye F, Huang Y, Gao SJ. Regulation of herpesvirus lifecycle by viral microRNAs. Virulence. 1: 433-5. PMID 21170300 DOI: 10.4161/viru.1.5.12966  0.88
2010 Liu H, Yue D, Zhang L, Chen Y, Gao SJ, Huang Y. A Bayesian approach for identifying miRNA targets by combining sequence prediction and gene expression profiling. Bmc Genomics. 11: S12. PMID 21143779 DOI: 10.1186/1471-2164-11-S3-S12  0.88
2010 Meng J, Lu M, Chen Y, Gao SJ, Huang Y. Robust inference of the context specific structure and temporal dynamics of gene regulatory network. Bmc Genomics. 11: S11. PMID 21143778 DOI: 10.1186/1471-2164-11-S3-S11  0.88
2010 Liu H, Yue D, Chen Y, Gao SJ, Huang Y. Improving performance of mammalian microRNA target prediction. Bmc Bioinformatics. 11: 476. PMID 20860840 DOI: 10.1186/1471-2105-11-476  0.88
2010 Lei X, Bai Z, Ye F, Huang Y, Gao SJ. MicroRNAs control herpesviral dormancy. Cell Cycle (Georgetown, Tex.). 9: 1225-6. PMID 20234183  0.88
2010 Lei X, Bai Z, Ye F, Xie J, Kim CG, Huang Y, Gao SJ. Regulation of NF-kappaB inhibitor IkappaBalpha and viral replication by a KSHV microRNA. Nature Cell Biology. 12: 193-9. PMID 20081837 DOI: 10.1038/ncb2019  0.88
2010 Ma C, Chen HIH, Huang Y, Chen Y. Constructing a compound Mode-of-Action network for personalized drug effectiveness prediction 2010 Acm International Conference On Bioinformatics and Computational Biology, Acm-Bcb 2010. 520-528. DOI: 10.1145/1854776.1854876  0.88
2010 Meng J, Zhang J, Chen Y, Huang Y. Uncovering transcriptional regulatory networks by sparse Bayesian factor model International Conference On Signal Processing Proceedings, Icsp. 1785-1788. DOI: 10.1109/ICOSP.2010.5656704  0.88
2010 Meng J, Zhang J, Chen Y, Huang Y. An iterated conditional mode solution for Bayesian factor modeling of transcriptional regulatory networks 2010 Ieee International Workshop On Genomic Signal Processing and Statistics, Gensips 2010. DOI: 10.1109/GENSIPS.2010.5719679  0.88
2010 Ma C, Huang Y, Chen HI, Chen Y. A computational framework for predicting drug Mode-of-Action 2010 Ieee International Conference On Bioinformatics and Biomedicine Workshops, Bibmw 2010. 374-379. DOI: 10.1109/BIBMW.2010.5703831  0.88
2010 Meng J, Zhang J, Chen Y, Huang Y. An iterated conditional modes solution for sparse Bayesian factor modeling of transcriptional regulatory networks Proceedings - 2010 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2010. 335-340. DOI: 10.1109/BIBM.2010.5706587  0.88
2010 Liu H, Zhang L, Sun Q, Chen Y, Huang Y. SysMicrO: A novel systems approach for miRNA target prediction Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6216: 9-16. DOI: 10.1007/978-3-642-14932-0_2  0.88
2010 Zhang L, Liu H, Yue D, He H, Huang Y. MiRNA target prediction method based on the combination of multiple algorithms Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6215: 258-265. DOI: 10.1007/978-3-642-14922-1_33  0.88
2009 Liu H, Gao SJ, Huang Y. A Bayesian Approach for Identifying miRNA Targets by Combining Sequence Prediction and Expression Profiling. Proceedings ... International Joint Conference On Bioinformatics, Systems Biology and Intellgent Computing. International Joint Conference On Bioinformatics, Systems Biology and Intelligent Computing. 2009: 185-189. PMID 21234333 DOI: 10.1109/IJCBS.2009.120  0.88
2009 Zhang J, Gonzalez E, Hestilow T, Haskins W, Huang Y. Review of peak detection algorithms in liquid-chromatography-mass spectrometry. Current Genomics. 10: 388-401. PMID 20190954 DOI: 10.2174/138920209789177638  0.88
2009 Dougherty ER, Huang Y, Kim S, Cai X, Yamaguchi R. Genomic signal processing. Current Genomics. 10: 364. PMID 20190951 DOI: 10.2174/138920209789177593  0.88
2009 Serpedin E, Garcia-Frias J, Huang Y, Braga-Neto U. Applications of signal processing techniques to bioinformatics, genomics, and proteomics. Eurasip Journal On Bioinformatics & Systems Biology. 250306. PMID 19404479 DOI: 10.1155/2009/250306  0.88
2009 Meng J, Gao SJ, Huang Y. Enrichment constrained time-dependent clustering analysis for finding meaningful temporal transcription modules. Bioinformatics (Oxford, England). 25: 1521-7. PMID 19351618 DOI: 10.1093/bioinformatics/btp235  0.56
2008 Meng J, Gao SJ, Huang Y. An Iterative Time Windowed Signature Algorithm for Time Dependent Transcription Module Discovery. Ieee International Workshop On Genomic Signal Processing and Statistics : [Proceedings]. Ieee International Workshop On Genomic Signal Processing and Statistics. 2008: 1-4. PMID 21552463 DOI: 10.1109/GENSIPS.2008.4555659  0.56
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