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Dan He, Ph.D. - Publications

Affiliations: 
2012 Computer Science 0201 University of California, Los Angeles, Los Angeles, CA 
Area:
bioinformatics; computational biology; machine learning
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65 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 He D, Lou XY, He SL, Lei YK, Lv BV, Wang Z, Zheng YB, Liu YP. Isobaric tags for relative and absolute quantitation-based quantitative proteomics analysis provides novel insights into the mechanism of cross-incompatibility between tree peony and herbaceous peony. Functional Plant Biology : Fpb. PMID 30940329 DOI: 10.1071/FP18163  0.6
2018 He D, Saha S, Finkers R, Parida L. Efficient algorithms for polyploid haplotype phasing. Bmc Genomics. 19: 110. PMID 29764364 DOI: 10.1186/s12864-018-4464-9  0.6
2017 He D, Wang Z, Parida L, Eskin E. IPED2: Inheritance Path based Pedigree Reconstruction Algorithm for Complicated Pedigrees. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 28368828 DOI: 10.1109/TCBB.2017.2688439  0.96
2016 He D, Parida L. MUSE: A MULTI-LOCUS SAMPLING-BASED EPISTASIS ALGORITHM FOR QUANTITATIVE GENETIC TRAIT PREDICTION. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 22: 426-437. PMID 27896995  0.6
2016 He D, Parida L. Does encoding matter? A novel view on the quantitative genetic trait prediction problem. Bmc Bioinformatics. 17: 272. PMID 27454886 DOI: 10.1186/s12859-016-1127-1  0.6
2016 He D, Kuhn D, Parida L. Novel applications of multitask learning and multiple output regression to multiple genetic trait prediction. Bioinformatics (Oxford, England). 32: i37-i43. PMID 27307640 DOI: 10.1093/bioinformatics/btw249  0.6
2016 He D, Rish I, Haws D, Parida L. MINT: Mutual Information Based Transductive Feature Selection for Genetic Trait Prediction. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 13: 578-583. PMID 27295642 DOI: 10.1109/TCBB.2015.2448071  0.6
2016 Yin L, He D, Shen H, Ling X, Li W, Xue Q, Wang Z. Surgical treatment of cardiac tumors: a 5-year experience from a single cardiac center. Journal of Thoracic Disease. 8: 911-9. PMID 27162666 DOI: 10.21037/jtd.2016.03.87  0.6
2016 Yao Y, Zhang B, Zhu H, Li H, Han Y, Chen K, Wang Z, Zeng J, Liu Y, Wang X, Li Y, He D, Lin P, Zhou X, Park KH, et al. MG53 permeates through blood-brain barrier to protect ischemic brain injury. Oncotarget. PMID 26967557 DOI: 10.18632/oncotarget.7965  0.6
2016 Sul JH, Bilow M, Yang WY, Kostem E, Furlotte N, He D, Eskin E. Accounting for Population Structure in Gene-by-Environment Interactions in Genome-Wide Association Studies Using Mixed Models. Plos Genetics. 12: e1005849. PMID 26943367 DOI: 10.1371/journal.pgen.1005849  0.92
2016 Wang Z, Lv P, Luo W, Yuan Z, He D. Expression in Pichia pastoris and characterization of Rhizomucor miehei lipases containing a new propeptide region. The Journal of General and Applied Microbiology. 62: 25-30. PMID 26923128 DOI: 10.2323/jgam.62.25  0.6
2016 Jia W, Wu Y, Chen Y, He D, Li J, Wang Y, Wang Z, Zhu W, Chen C, Peng Q, Wang D, Li Y. Interface-induced formation of onion-like alloy nanocrystals by defects engineering Nano Research. 1-9. DOI: 10.1007/s12274-016-0999-8  0.6
2016 Yang F, He D, Liu Y, Li N, Wang Z, Ma Q, Dong G. Conservation of bone relics using hydroxyapatite as protective material Applied Physics a: Materials Science and Processing. 122. DOI: 10.1007/s00339-016-0015-x  0.6
2016 Xue Z, Wang Z, He D, Zhou X, Xie X. Synthesis of poly(n-butyl acrylate) homopolymer and poly(styrene-b-n-butyl acrylate-b-styrene) triblock copolymer via AGET emulsion ATRP using a cationic surfactant Journal of Polymer Science, Part a: Polymer Chemistry. 54: 611-620. DOI: 10.1002/pola.27809  0.6
2015 Haws DC, Rish I, Teyssedre S, He D, Lozano AC, Kambadur P, Karaman Z, Parida L. Variable-Selection Emerges on Top in Empirical Comparison of Whole-Genome Complex-Trait Prediction Methods. Plos One. 10: e0138903. PMID 26439851 DOI: 10.1371/journal.pone.0138903  0.6
2015 He D, Wang Z, Parida L. Data-driven encoding for quantitative genetic trait prediction. Bmc Bioinformatics. 16: S10. PMID 25707435 DOI: 10.1186/1471-2105-16-S1-S10  0.6
2015 He D, Parida L. SAME: A sampling-based multi-locus epistasis algorithm for quantitative genetic trait prediction Bcb 2015 - 6th Acm Conference On Bioinformatics, Computational Biology, and Health Informatics. 286-295. DOI: 10.1145/2808719.2808749  0.96
2015 Ogundijo OE, He D, Parida L. Performance evaluation of different encoding strategies for quantitative genetic trait prediction 2015 Ieee 5th International Conference On Computational Advances in Bio and Medical Sciences, Iccabs 2015. DOI: 10.1109/ICCABS.2015.7344715  0.96
2015 He D, Parida L. Does encoding matter? A novel view on the quantitative genetic trait prediction problem Proceedings - 2015 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2015. 123-126. DOI: 10.1109/BIBM.2015.7359667  0.96
2015 Arslan AN, He D, He Y, Wu X. Pattern matching with wildcards and length constraints using maximum network flow Journal of Discrete Algorithms. 35: 9-16. DOI: 10.1016/j.jda.2015.08.003  0.96
2015 He D, Wang Z, Parada L. MINED: An efficient mutual information based epistasis detection method to improve quantitative genetic trait prediction Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 9096: 108-124. DOI: 10.1007/978-3-319-19048-8_10  0.96
2014 He D, Eskin E. IPED2X: a robust pedigree reconstruction algorithm for complicated pedigrees. Journal of Bioinformatics and Computational Biology. 12: 1442007. PMID 25553812 DOI: 10.1142/S0219720014420074  0.96
2014 Niu X, Lu C, Xiao C, Zhang Z, Jiang M, He D, Bian Y, Zhang G, Bian Z, Lu A. The shared crosstalk of multiple pathways involved in the inflammation between rheumatoid arthritis and coronary artery disease based on a digital gene expression profile. Plos One. 9: e113659. PMID 25514790 DOI: 10.1371/journal.pone.0113659  0.96
2014 Huang YY, Jiang M, Zhang C, Wang Z, He D, Guo YM, Tian JP, Yu XC, Lu AP. Benefits of Chinese medicine among patients with diabetic foot: an expert review from clinical studies. Current Vascular Pharmacology. PMID 25360838  0.6
2014 He D, Furlotte NA, Hormozdiari F, Joo JW, Wadia A, Ostrovsky R, Sahai A, Eskin E. Identifying genetic relatives without compromising privacy. Genome Research. 24: 664-72. PMID 24614977 DOI: 10.1101/gr.153346.112  0.96
2014 He D, Parker DS. SemInf: a burst-based semantic influence model for biomedical topic influence. Ieee Journal of Biomedical and Health Informatics. 18: 508-14. PMID 24235257 DOI: 10.1109/JBHI.2013.2285875  0.96
2014 He D, Wang Z, Parida L, Eskin E. IPED2: Inheritance path based pedigree reconstruction algorithm for complicated pedigrees Acm Bcb 2014 - 5th Acm Conference On Bioinformatics, Computational Biology, and Health Informatics. 202-210. DOI: 10.1145/2649387.2649438  0.96
2014 He D, Rish I, Parida L. Transductive HSIC Lasso Siam International Conference On Data Mining 2014, Sdm 2014. 1: 154-162. DOI: 10.1137/1.9781611973440.18  0.96
2013 He D, Wang Z, Han B, Parida L, Eskin E. IPED: inheritance path-based pedigree reconstruction algorithm using genotype data. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 20: 780-91. PMID 24093229 DOI: 10.1089/cmb.2013.0080  0.96
2013 Yang WY, Hormozdiari F, Wang Z, He D, Pasaniuc B, Eskin E. Leveraging reads that span multiple single nucleotide polymorphisms for haplotype inference from sequencing data. Bioinformatics (Oxford, England). 29: 2245-52. PMID 23825370 DOI: 10.1093/bioinformatics/btt386  0.96
2013 He D. IBD-Groupon: an efficient method for detecting group-wise identity-by-descent regions simultaneously in multiple individuals based on pairwise IBD relationships. Bioinformatics (Oxford, England). 29: i162-70. PMID 23812980 DOI: 10.1093/bioinformatics/btt237  0.96
2013 He D, Han B, Eskin E. Hap-seq: an optimal algorithm for haplotype phasing with imputation using sequencing data. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 20: 80-92. PMID 23383995 DOI: 10.1089/cmb.2012.0091  0.96
2013 He D, Eskin E. Hap-seqX: expedite algorithm for haplotype phasing with imputation using sequence data. Gene. 518: 2-6. PMID 23269365 DOI: 10.1016/j.gene.2012.11.093  0.96
2013 He D, Parker DS. Optimized retrieval algorithms for personalized content aggregation Proceedings of the 2013 Ieee 14th International Conference On Information Reuse and Integration, Ieee Iri 2013. 270-277. DOI: 10.1109/IRI.2013.6642482  0.96
2013 He D, Eskin E. IPEDX: An exact algorithm for pedigree reconstruction using genotype data Proceedings - 2013 Ieee International Conference On Bioinformatics and Biomedicine, Ieee Bibm 2013. 517-520. DOI: 10.1109/BIBM.2013.6732549  0.96
2013 He D, Wang Z, Han B, Parida L, Eskin E. IPED: Inheritance path based pedigree reconstruction algorithm using genotype data Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 7821: 75-87. DOI: 10.1007/978-3-642-37195-0_7  0.96
2012 He D. Modeling semantic influence for biomedical research topics using MeSH hierarchy Proceedings - 2012 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2012. 65-70. DOI: 10.1109/BIBM.2012.6392645  0.96
2011 He D, Zaitlen N, Pasaniuc B, Eskin E, Halperin E. Genotyping common and rare variation using overlapping pool sequencing. Bmc Bioinformatics. 12: S2. PMID 21989232 DOI: 10.1186/1471-2105-12-S6-S2  0.96
2011 He D, Hormozdiari F, Furlotte N, Eskin E. Efficient algorithms for tandem copy number variation reconstruction in repeat-rich regions. Bioinformatics (Oxford, England). 27: 1513-20. PMID 21505028 DOI: 10.1093/bioinformatics/btr169  0.96
2011 Sul JH, Han B, He D, Eskin E. An optimal weighted aggregated association test for identification of rare variants involved in common diseases. Genetics. 188: 181-8. PMID 21368279 DOI: 10.1534/genetics.110.125070  0.96
2011 He D, Kunwar P, Eskin E, Horton H, Gilbert P, Hertz T. Using HLA binding prediction algorithms for epitope mapping in HIV vaccine clinical trials 2011 Acm Conference On Bioinformatics, Computational Biology and Biomedicine, Bcb 2011. 594-601. DOI: 10.1145/2147805.2147907  0.96
2011 Welch MJ, Schonfeld U, He D, Cho J. Topical semantics of twitter links Proceedings of the 4th Acm International Conference On Web Search and Data Mining, Wsdm 2011. 327-336. DOI: 10.1145/1935826.1935882  0.96
2011 He D, Zhu X, Wu X. Mining approximate repeating patterns from sequence data with gap constraints Computational Intelligence. 27: 336-362. DOI: 10.1111/j.1467-8640.2011.00383.x  0.96
2011 He D, Zhu X, Parker DS. How does research evolve? Pattern mining for research meme cycles Proceedings - Ieee International Conference On Data Mining, Icdm. 1068-1073. DOI: 10.1109/ICDM.2011.76  0.96
2011 Zhu X, Li B, Wu X, He D, Zhang C. CLAP: Collaborative pattern mining for distributed information systems Decision Support Systems. 52: 40-51. DOI: 10.1016/j.dss.2011.05.002  0.96
2011 He D. Mining research topic-related influence between academia and industry Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6912: 17-31. DOI: 10.1007/978-3-642-23783-6_2  0.96
2011 He D, Parker DS. Learning the funding momentum of research projects Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6635: 532-543. DOI: 10.1007/978-3-642-20847-8-44  0.96
2010 He D, Furlotte N, Eskin E. Detection and reconstruction of tandemly organized de novo copy number variations. Bmc Bioinformatics. 11: S12. PMID 21172047 DOI: 10.1186/1471-2105-11-S11-S12  0.96
2010 He D, Choi A, Pipatsrisawat K, Darwiche A, Eskin E. Optimal algorithms for haplotype assembly from whole-genome sequence data. Bioinformatics (Oxford, England). 26: i183-90. PMID 20529904 DOI: 10.1093/bioinformatics/btq215  0.96
2010 He D, Parker DS. Topic dynamics: An alternative model of 'Bursts' in streams of topics Proceedings of the Acm Sigkdd International Conference On Knowledge Discovery and Data Mining. 443-452. DOI: 10.1145/1835804.1835862  0.96
2010 He D, Eskin E. Effective algorithms for fusion gene detection Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6293: 312-324. DOI: 10.1007/978-3-642-15294-8_26  0.96
2010 He D, Wu X, Zhu X. Rule synthesizing from multiple related databases Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6119: 201-213. DOI: 10.1007/978-3-642-13672-6_20  0.96
2009 He D, Zhu X, Wu X. Error detection and uncertainty modeling for imprecise data Proceedings - International Conference On Tools With Artificial Intelligence, Ictai. 792-795. DOI: 10.1109/ICTAI.2009.9  0.96
2009 He D, Zhu X, Wu X. Approximate repeating pattern mining with gap requirements Proceedings - International Conference On Tools With Artificial Intelligence, Ictai. 17-24. DOI: 10.1109/ICTAI.2009.8  0.96
2008 Zhu X, Zhang P, Wu X, He D, Zhang C, Shi Y. Cleansing Noisy Data Streams Proceedings - Ieee International Conference On Data Mining, Icdm. 1139-1144. DOI: 10.1109/ICDM.2008.45  0.96
2007 He D, Wu X, Zhu X. SAIL-APPROX: An efficient on-line algorithm for approximate pattern matching with wildcards and length constraints Proceedings - 2007 Ieee International Conference On Bioinformatics and Biomedicine, Bibm 2007. 151-158. DOI: 10.1109/BIBM.2007.48  0.96
2007 He D, Arslan AN, He Y, Wu X. Iterative refinement of repeat sequence specification using constrained pattern matching Proceedings of the 7th Ieee International Conference On Bioinformatics and Bioengineering, Bibe. 1199-1203. DOI: 10.1109/BIBE.2007.4375715  0.96
2007 He D. BMA*: An efficient algorithm for the one-to-some shortest path problem on road maps Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 4508: 346-357.  0.96
2006 He D. Using suffix tree to discover complex repetitive patterns in DNA sequences Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Conference. 3474-3477. PMID 17945779 DOI: 10.1109/IEMBS.2006.260445  0.96
2006 He D, Wu X. Ontology-based feature weighting for biomedical literature classification Proceedings of the 2006 Ieee International Conference On Information Reuse and Integration, Iri-2006. 280-285. DOI: 10.1109/IRI.2006.252426  0.96
2006 Arslan AN, He D. An improved algorithm for the regular expression constrained multiple sequence alignment problem Proceedings - Sixth Ieee Symposium On Bioinformatics and Bioengineering, Bibe 2006. 121-126. DOI: 10.1109/BIBE.2006.253324  0.96
2006 He D, Arslan AN, Ling ACH. A fast algorithm for the constrained multiple sequence alignment problem Acta Cybernetica. 17: 701-717.  0.96
2006 He D, Arslan AN. A * algorithms for the constrained multiple sequence alignment problem Proceedings of the 2006 International Conference On Artificial Intelligence, Icai'06. 2: 479-485.  0.96
2005 He D, Arslan AN. A space-efficient algorithm for the constrained pairwise sequence alignment problem. Genome Informatics. International Conference On Genome Informatics. 16: 237-46. PMID 16901106  0.96
2005 He D, Arslan AN. A parallel algorithm for the constrained multiple sequence alignment problem Proceedings - Bibe 2005: 5th Ieee Symposium On Bioinformatics and Bioengineering. 2005: 258-262. DOI: 10.1109/BIBE.2005.9  0.96
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