1. A sequential Monte Carlo algorithm for inference of subclonal structure in cancer Ogundijo, Oyetunji Enoch; Zhu, Kaiyi; Wang, Xiaodong; Anastassiou, Dimitris 2019 Articles Tumors--Growth--Mathematical modelsMonte Carlo methodOncology
2. Meta-analysis of expression and methylation signatures indicates a stress-related epigenetic mechanism in multiple neuropsychiatric disorders Zhu, Kaiyi; Ou Yang, Tai-Hsien; Dorie, Vincent Joseph; Zheng, Tian; Anastassiou, Dimitris 2019 Articles Neurobehavioral disordersPathologyEpigeneticsMethylationStress (Psychology)--Physiological aspectsSystems biology
3. SeqClone: sequential Monte Carlo based inference of tumor subclones Ogundijo, Oyetunji E.; Wang, Xiaodong 2019 Articles Tumors--Genetic aspectsMonte Carlo methodSingle nucleotide polymorphismsBayesian statistical decision theory--Mathematical models
4. Joint Representation of Spatial and Phonetic Features in the Human Core Auditory Cortex Patel, Prachi; Long, Laura Kathleen; Herrero, Jose L.; Mehta, Ashesh D.; Mesgarani, Nima 2018 Articles Auditory perception--ResearchNeural networks (Neurobiology)ElectrophysiologyAuditory cortex
5. Machine learning reveals cyclic changes in seismic source spectra in Geysers geothermal field Holtzman, Benjamin K.; Paté, Arthur; Paisley, John W.; Waldhauser, Felix; Repetto, Douglas I. 2018 Articles Machine learningEarthquake prediction--Statistical methodsSeismology
6. On-chip dual-comb source for spectroscopy Dutt, Avik; Joshi, Chaitanya; Ji, Xingchen; Cardenas, Jaime; Okawachi, Yoshitomo; Luke, Kevin; Gaeta, Alexander L.; Lipson, Michal 2018 Articles Electrical engineeringMicroresonators (Optoelectronics)Spectrum analysisSpectrometerPhysicsSystems on a chip
7. Ultra-high-speed graphene optical modulator design based on tight field confinement in a slot waveguide Kovacevic, Goran; Phare, Christopher Thomas; Set, Sze Y.; Lipson, Michal; Yamashita, Shinji 2018 Articles GrapheneOptical wave guidesPhotonicsModulators (Electronics)--DesignElectrical engineering
8. A Novel Monopulse Technique for Adaptive Phased Array Radar Zhang, Xinyu; Li, Yang; Yang, Xiaopeng; Zheng, Le; Long, Teng; Baker, Christopher J. 2017 Articles Monopulse radarSignal processingAlgorithmsElectrical engineering
9. A sequential Monte Carlo approach to gene expression deconvolution Ogundijo, Oyetunji Enoch; Wang, Xiaodong 2017 Articles Gene expressionMonte Carlo methodElectrical engineering
10. Bayesian estimation of scaled mutation rate under the coalescent: a sequential Monte Carlo approach Ogundijo, Oyetunji Enoch; Wang, Xiaodong 2017 Articles BioinformaticsBayesian statistical decision theoryMonte Carlo methodGenealogyGenetics
11. Reverse engineering gene regulatory networks from measurement with missing values Ogundijo, Oyetunji Enoch; Elmas, Abdulkadir; Wang, Xiaodong 2017 Articles Missing observations (Statistics)Gene expressionMathematical statisticsGene regulatory networksReverse engineering
12. The folded k-spectrum kernel: A machine learning approach to detecting transcription factor binding sites with gapped nucleotide dependencies Elmas, Abdulkadir; Wang, Xiaodong; Dresch, Jacqueline M. 2017 Articles Machine learningNucleotide sequence--Data processingElectrical engineeringComputer science
13. A 72 × 60 Angle-Sensitive SPAD Imaging Array for Lens-less FLIM Lee, Changhyuk; Johnson, Ben; Jung, Taesung; Molnar, Alyosha 2016 Articles Optical detectorsFluorescence microscopyImaging systems in biologyElectrical engineering
14. Ar+-Implanted Si-Waveguide Photodiodes for Mid-Infrared Detection Souhan, Brian; Chen, Christine P.; Lu, Ming; Stein, Aaron; Bakhru, Hassaram; Grote, Richard; Bergman, Keren; Green, William M. J.; Osgood Jr., Richard M. 2016 Articles PhotonicsOptical detectorsIntegrated optics
15. Collagen Fiber Orientation and Dispersion in the Upper Cervix of Non-Pregnant and Pregnant Women Yao, Frank; Gan, Yu; Myers, Kristin M.; Vink, Joy-Sarah Yumiko; Wapner, Ronald J.; Hendon, Christine P. 2016 Articles Cervix uteriPregnancy--Physiological aspectsCollagenMechanical engineeringObstetricsGynecology
16. Discovering Genome-Wide Tag SNPs Based on the Mutual Information of the Variants Elmas, Abdulkadir; Ou Yang, Tai-Hsien; Wang, Xiaodong; Anastassiou, Dimitris 2016 Articles Genomics--Data processingHuman genetics--Data processingChromosomesGene mappingSingle nucleotide polymorphismsGeneticsBiology--Classification
17. Neurokernel: An Open Source Platform for Emulating the Fruit Fly Brain Givon, Lev E.; Lazar, Aurel A. 2016 Articles Graphics processing unitsBrain--ModelsDrosophila melanogaster--PhysiologyNeurosciencesElectrical engineering
18. Exploring Regulation Genes Involved in the Expression of L-Amino Acid Oxidase in Pseudoalteromonas sp. Rf-1 Yu, Zhiliang; Wang, Ju; Lin, Jianxun; Zhao, Minyan; Qiu, Juanping 2015 Articles Genetic regulationMarine bacteriaOxidasesFlavoproteinsBiosynthesisGene expressionGeneticsMicrobiology
19. Polymyxin E Induces Rapid Paenibacillus polymyxa Death by Damaging Cell Membrane while Ca2+ Can Protect Cells from Damage Qin, Wangrong; Yu, Zhiliang; Cai, Yuanning; Lin, Jianxun; Qiu, Juanping 2015 Articles Gram-positive bacteriaCell membranesPolymyxinMolecular biologyCytologyBiochemistry
20. Reconstruction of novel transcription factor regulons through inference of their binding sites Elmas, Abdulkadir; Wang, Xiaodong; Samoilov, Michael S. 2015 Articles Comparative genomicsBioinformaticsGenomics--Data processingComputational biologyTranscription factorsElectrical engineeringGeneticsMolecular biologyMathematics
21. User association for energy harvesting relay stations in cellular networks Wang, Zhe; Wang, Xiaodong; Aldiab, Motasem; Jaber, Tareq 2015 Articles Wireless communication systemsEnergy harvestingMobile radio stationsRadio relay systemsElectrical engineeringMathematics
22. A sequential Monte Carlo framework for haplotype inference in CNV/SNP genotype data Iliadis, Alexandros; Anastassiou, Dimitris; Wang, Xiaodong 2014 Articles Computational biologyGenomics--Data processingBioinformatics
23. Cardiac tissue characterization using near-infrared spectroscopy Singh-Moon, Rajinder; Hendon, Christine P. 2014 Articles BiologyMedicine
24. Functional identification of an antennal lobe DM4 projection neuron of the fruit fly Lazar, Aurel A.; Yeh, Chung-Heng 2014 Articles Fruit-fliesNeural circuitry--Mathematical modelsNeurosciences
25. Helium-ion-induced radiation damage in LiNbO₃ thin-film electro-optic modulators Huang, Hsu-Cheng; Dadap, Jr., Jerry I.; Malladi, Girish; Kymissis, Ioannis; Bakhru, Hassaram; Osgood, Jr., Richard M. 2014 Articles Electrical engineeringPhysics
26. Integrated circuit-based electrochemical sensor for spatially resolved detection of redox-active metabolites in biofilms Bellin, Daniel L.; Sakhtah, Hassan; Thimot, Jordan; Emmett, Kevin; Dietrich, Lars; Shepard, Kenneth L. 2014 Articles Molecular biologyElectrical engineeringNanotechnologyBiophysics
27. Metal-semiconductor-metal ion-implanted Si waveguide photodetectors for C-band operation Souhan, Brian; Grote, Richard R.; Driscoll, Jeffrey B.; Lu, Ming; Stein, Aaron; Bakhru, Hassaram; Osgood, Jr., Richard M. 2014 Articles Electrical engineering
28. Regularized EM algorithm for sparse parameter estimation in nonlinear dynamic systems with application to gene regulatory network inference Jia, Bin; Wang, Xiaodong 2014 Articles Gene regulatory networksExpectation-maximization algorithmsBioinformatics
29. Your Eyes Give You Away: Prestimulus Changes in Pupil Diameter Correlate with Poststimulus Task-Related EEG Dynamics Hong, Linbi; Walz, Jennifer M.; Sajda, Paul 2014 Articles Pupil (Eye)AttentionElectroencephalographyPsychology
30. Biomolecular Events in Cancer Revealed by Attractor Metagenes Cheng, Wei-Yi; Ou Yang, Tai-Hsien; Anastassiou, Dimitris 2013 Articles Gene expressionChromosomesBreast--CancerBiochemistry
31. Depth resolved detection of lipid using spectroscopic optical coherence tomography Fleming, Christine P.; Eckert, Jocelyn; Halpern, Elkan F.; Gardecki, Joseph A.; Tearney, Guillermo J. 2013 Articles Biomedical engineering
32. Extracting Three-Dimensional Orientation and Tractography of Myofibers Using Optical Coherence Tomography Gan, Yu; Fleming, Christine P. 2013 Articles CytologyDiagnostic imagingBioinformatics
33. Gene regulatory network inference by point-based Gaussian approximation filters incorporating the prior information Jia, Bin; Wang, Xiaodong 2013 Articles Gaussian distributionIterative methods (Mathematics)Kalman filteringGene regulatory networksBioinformaticsBiometryMathematics
34. Hierarchical Dirichlet process model for gene expression clustering Wang, Xiaodong; Wang, Liming 2013 Articles Genetics
35. Maximum-parsimony haplotype frequencies inference based on a joint constrained sparse representation of pooled DNA Jajamovich, Guido H.; Iliadis, Alexandros; Anastassiou, Dimitris; Wang, Xiaodong 2013 Articles BiometryDNA--Data processingGenetics—ResearchBioinformaticsGeneticsBiology
36. Maximum parsimony xor haplotyping by sparse dictionary selection Elmas, Abdulkadir; Jajamovich, Guido H.; Wang, Xiaodong 2013 Articles Biometry--ResearchBioinformatics--MethodologyGenomics--Data processingGenetics—ResearchGeneticsBioinformaticsMolecular biology
37. Notch and VEGF pathways play distinct but complementary roles in tumor angiogenesis Hernandez, Sonia; Banerjee, Debarshi; Garcia, Alejandro; Kangsamaksin, Thaned; Cheng, Wei-Yi; Anastassiou, Dimitris; Funahashi, Yasuhiro; Kadenhe-Chiweshe, Angela; Shawber, Carrie; Kitajewski, Jan K.; Kandel, Jessica; Yamashiro, Darrell J. 2013 Articles NeuroblastomaNeovascularizationBevacizumabVascular endothelial growth factorsMolecular biologyOncologyMedicine
38. Dynamic 3D Scene Depth Reconstruction via Optical Flow Field Rectification Yang, You; Liu, Qiong; Ji, Rongrong; Gao, Yue 2012 Articles AlgorithmsOptical pattern recognitionCamerasTomography
39. Efficient Point-to-Subspace Query in ℓ1 with Application to Robust Face Recognition Sun, Ju; Zhang, Yuqian; Wright, John N. 2012 Articles Computer scienceArtificial intelligence
40. Fast and accurate haplotype frequency estimation for large haplotype vectors from pooled DNA data Iliadis, Alexandros; Anastassiou, Dimitris; Wang, Xiaodong 2012 Articles GeneticsBioinformatics
41. Inference of gene regulatory networks from genome-wide knockout fitness data Wang, Liming; Wang, Xiaodong; Arkin, Adam P.; Samoilov, Michael S. 2012 Articles Bioinformatics
42. Multi-Sensor Fusion of Infrared and Electro-Optic Signals for High Resolution Night Images Huang, Xiaopeng; Netravali, Ravi; Man, Hong; Lawrence, Victor 2012 Articles Electrical engineering
43. Responses of Retinal Ganglion Cells to Extracellular Electrical Stimulation, from Single Cell to Population: Model-Based Analysis Tsai, David Meng-Ting; Chen, Spencer; Protti, Dario A.; Morley, John W.; Suaning, Gregg J.; Lovell, Nigel H. 2012 Articles CytologyRetinal ganglion cellsElectric stimulationBiology
44. Adaptive antenna selection and Tx/Rx beamforming for large-scale MIMO systems in 60 GHz channels Dong, Ke; Prasad, Narayan; Wang, Xiaodong; Zhu, Shihua 2011 Articles Electrical engineering
45. Bayesian Multiple-Instance Motif Discovery with BAMBI: Inference of Recombinase and Transcription Factor Binding Sites Jajamovich, Guido H.; Wang, Xiaodong; Arkin, Adam P.; Samoilov, Michael S. 2011 Articles Bioinformatics
46. Classifying soundtracks with audio texture features Ellis, Daniel P. W.; Zeng, Xiaohong; McDermott, Josh H. 2011 Articles Electrical engineering
47. Combining Localization Cues and Source Model Constraints for Binaural Source Separation Weiss, Ron J.; Mandel, Michael I.; Ellis, Daniel P. W. 2011 Articles Electrical engineering
48. Direct processing of MPEG audio using companding and BFP techniques Vezyrtzis, Christos; Klein, Aaron; Ellis, Daniel P. W.; Tsividis, Yannis P. 2011 Articles Electrical engineering
49. Echoprint: An Open Music Identification Service Ellis, Daniel P. W.; Whitman, Brian; Porter, Alastair 2011 Articles Information science
50. Evaluating music sequence models through missing data Bertin-Mahieux, Thierry; Grindlay, Graham C.; Weiss, Ron J.; Ellis, Daniel P. W. 2011 Articles Electrical engineering