Long (Jason) Lu

Bachelor's Degree, Peking University 1998 (Biotechnology/Bioengineering)

Doctoral Degree, Washington University School of Medicine 2003 (Biochemistry, specialized in Computational Molecular Biology)

Postdoctorate, Yale University 2006 (Bioinformatics)

Peer Reviewed Publications

Gordon SM, Li H, Zhu X, Tso P, Reardon CA, Shah AS, Lu LJ, Davidson WS. (09-2012. ) Impact of genetic deletion of platform apolipoproteins on the size distribution of the murine lipoproteome.J Proteomics., , 146 ,184

Tan L, Holland SK, Deshpande AK, Chen Y, Choo DI, Lu LJ. (10-2015. ) A semi-supervised Support Vector Machine model for predicting the language outcomes following cochlear implantation based on pre-implant brain fMRI imaging.Brain Behav., , 5 (12 ) ,e00391

Deshpande AK, Tan L, Lu LJ, Altaye M, Holland SK. (07-2016. ) fMRI as a Preimplant Objective Tool to Predict Postimplant Oral Language Outcomes in Children with Cochlear Implants.Ear Hear., , 37 (4 ) ,e263

Cai WF, Liu GS, Lam CK, Florea S, Qian J, Zhao W, Pritchard T, Haghighi K, Lebeche D, Lu LJ, Deng J, Fan GC, Hajjar RJ, Kranias EG. (08-2015. ) Up-regulation of micro-RNA765 in human failing hearts is associated with post-transcriptional regulation of protein phosphatase inhibitor-1 and depressed contractility.Eur J Heart Fail., , 17 (8 ) ,782

Li H, Gordon SM, Zhu X, Deng J, Swertfeger DK, Davidson WS, Lu LJ. (08-2015. ) Network-Based Analysis on Orthogonal Separation of Human Plasma Uncovers Distinct High Density Lipoprotein Complexes.J Proteome Res., , 14 (8 ) ,3082

Panmanee W.;Su S.;Schurr M.;Lau G.;Zhu X.;Ren Z.;McDaniel C.;Lu L.;Ohman D.;Muruve D.;Panos R.;Yu H.;Thompson T.;Tseng B.;Hassett D. (06-01-2019. ) The anti-sigma factor MucA of Pseudomonas aeruginosa: Dramatic differences of a mucA22 vs. A ?mucA m.PLoS ONE, , 14 (6 ) ,

Swertfeger D.;Rebholz S.;Li H.;Shah A.;Davidson W.;Lu L. (11-01-2018. ) Feasibility of a plasma bioassay to assess oxidative protection of low-density lipoproteins by high-.Journal of Clinical Lipidology, , 12 (6 ) ,1539-1548

Deshpande A.;Tan L.;Lu L.;Altaye M.;Holland S. (05-01-2018. ) fMRI as a preimplant objective tool to predict children's postimplant auditory and language outcomes.Journal of the American Academy of Audiology, , 29 (5 ) ,389-404

Brewington J.J.;Backstrom J.;Feldman A.;Kramer E.L.;Moncivaiz J.D.;Ostmann A.J.;Zhu X.;Lu L.J.;Clancy J.P. (02-22-2018. ) Chronic ?2AR stimulation limits CFTR activation in human airway epithelia.JCI insight, , 3 (4 ) ,

Zhu X.;Shah A.S.;Swertfeger D.K.;Li H.;Ren S.;Melchior J.T.;Gordon S.M.;Davidson W.S.;Lu L.J. (01-01-2018. ) High-density lipoproteins-associated proteins and subspecies related to arterial stiffness in young .Complexity, , 2018 ,

Tan L.;Guo X.;Ren S.;Epstein J.N.;Lu L.J. (09-08-2017. ) A computational model for the automatic diagnosis of attention deficit hyperactivity disorder based .Frontiers in Computational Neuroscience, , 11 ,

Guo X.;Dominick K.C.;Minai A.A.;Li H.;Erickson C.A.;Lu L.J. (08-21-2017. ) Diagnosing autism spectrum disorder from brain resting-state functional connectivity patterns using .Frontiers in Neuroscience, , 11 (AUG ) ,

Guo X.;Minai A.;Lu L. (06-30-2017. ) Feature selection using multiple auto-encoders.Proceedings of the International Joint Conference on Neural Networks, , 2017-May ,4602-4609

Swertfeger D.;Li H.;Rebholz S.;Zhu X.;Shah A.;Davidson W.;Lu L. (04-01-2017. ) Mapping atheroprotective functions and related proteins/lipoproteins in size fractionated human plas.Molecular and Cellular Proteomics, , 16 (4 ) ,680-693

Melchior J.;Street S.;Andraski A.;Furtado J.;Sacks F.;Shute R.;Greve E.;Swertfeger D.;Li H.;Shah A.;Lu L.;Davidson W. (01-01-2017. ) Apolipoprotein A-II alters the proteome of human lipoproteins and enhances cholesterol efflux from A.Journal of Lipid Research, , 58 (7 ) ,1374-1385

Gordon S.;Li H.;Zhu X.;Tso P.;Reardon C.;Shah A.;Lu L.;Davidson W. (09-02-2016. ) Impact of genetic deletion of platform apolipoproteins on the size distribution of the murine lipopr.Journal of Proteomics, , 146 ,184-194

Deshpande A.;Tan L.;Lu L.;Altaye M.;Holland S. (07-01-2016. ) FMRI as a Preimplant Objective Tool to Predict Postimplant Oral Language Outcomes in Children with C.Ear and Hearing, , 37 (4 ) ,e263-e272

Gordon S.;Davidson W.;Urbina E.;Dolan L.;Heink A.;Zang H.;Lu L.;Shah A. (07-01-2016. ) Erratum: The effects of type 2 diabetes on lipoprotein composition and arterial stiffness in male yo.Diabetes, , 65 (7 ) ,2100

Chen Y.;Mazlack L.;Minai A.;Lu L. (12-01-2015. ) Inferring causal networks using fuzzy cognitive maps and evolutionary algorithms with application to.Applied Soft Computing Journal, , 37 ,667-679

Ren S.;Hinzman A.A.;Kang E.L.;Szczesniak R.D.;Lu L.J. (12-01-2015. ) Computational and statistical analysis of metabolomics data.Metabolomics, , 11 (6 ) ,1492-1513

Tan L.;Holland S.;Deshpande A.;Chen Y.;Choo D.;Lu L. (12-01-2015. ) A semi-supervised Support Vector Machine model for predicting the language outcomes following cochle.Brain and Behavior, , 5 (12 ) ,1-25

Li H.;Gordon S.;Zhu X.;Deng J.;Swertfeger D.;Davidson W.;Lu L. (08-07-2015. ) Network-Based Analysis on Orthogonal Separation of Human Plasma Uncovers Distinct High Density Lipop.Journal of Proteome Research, , 14 (8 ) ,3082-3094

Cai W.;Liu G.;Lam C.;Florea S.;Qian J.;Zhao W.;Pritchard T.;Haghighi K.;Lebeche D.;Lu L.;Deng J.;Fan G.;Hajjar R.;Kranias E. (08-01-2015. ) Up-regulation of micro-RNA765 in human failing hearts is associated with post-transcriptional regula.European Journal of Heart Failure, , 17 (8 ) ,782-793

Lu Y.;Lu Y.;Deng J.;Peng H.;Lu H.;Lu L.J. (07-31-2015. ) A novel essential domain perspective for exploring gene essentiality.Bioinformatics, , 31 (18 ) ,2921-2929

Heink A.;Davidson W.;Swertfeger D.;Lu L.;Shah A. (07-02-2015. ) A Comparison of Methods to Enhance Protein Detection of Lipoproteins by Mass Spectrometry.Journal of Proteome Research, , 14 (7 ) ,2943-2950

Gordon S.;Li H.;Zhu X.;Shah A.;Lu L.;Davidson W. (06-05-2015. ) A comparison of the mouse and human lipoproteome: Suitability of the mouse model for studies of huma.Journal of Proteome Research, , 14 (6 ) ,2686-2695

Lu L. (01-01-2015. ) Preface. Gene essentiality .Methods in molecular biology (Clifton, N.J.), , 1279 ,v

Lu Y.;Lu Y.;Deng J.;Lu H.;Lu L.J. (01-01-2015. ) Discovering essential domains in essential genes.Methods in Molecular Biology, , 1279 ,235-245

Krishnan K.;Ren Z.;Losada L.;Nierman W.;Lu L.;Askew D. (02-25-2014. ) Polysome profiling reveals broad translatome remodeling during endoplasmic reticulum (ER) stress in .BMC Genomics, , 15 (1 ) ,

Chen Y.;Storrs J.;Tan L.;Mazlack L.;Lee J.;Lu L. (01-15-2014. ) Detecting brain structural changes as biomarker from magnetic resonance images using a local feature.Journal of Neuroscience Methods, , 221 ,22-31

Lu Y.;Deng J.;Rhodes J.;Lu H.;Lu L. (01-01-2014. ) Predicting essential genes for identifying potential drug targets in Aspergillus fumigatus.Computational Biology and Chemistry, , 50 ,29-40

Lu Y.;Deng J.;Carson M.;Lu H.;Lu L. (01-01-2014. ) Computational methods for the prediction of microbial essential genes.Current Bioinformatics, , 9 (2 ) ,89-101

Tan L.;Chen Y.;Maloney T.;Caré M.;Holland S.;Lu L. (11-11-2013. ) Combined analysis of sMRI and fMRI imaging data provides accurate disease markers for hearing impair.NeuroImage: Clinical, , 3 ,416-428

Gordon S.;Deng J.;Tomann A.;Shah A.;Lu L.;Davidson W. (11-01-2013. ) Multi-dimensional co-separation analysis reveals protein-protein interactions defining plasma lipopr.Molecular and Cellular Proteomics, , 12 (11 ) ,3123-3134

Gordon S.;Davidson W.;Urbina E.;Dolan L.;Heink A.;Zang H.;Lu L.;Shah A. (08-01-2013. ) The effects of type 2 diabetes on lipoprotein composition and arterial stiffness in male youth.Diabetes, , 62 (8 ) ,2958-2967

Deng J.;Su S.;Lin X.;Hassett D.;Lu L. (03-08-2013. ) A Statistical Framework for Improving Genomic Annotations of Prokaryotic Essential Genes.PLoS ONE, , 8 (3 ) ,

Chen Y.;Mazlack L.;Lu L. (12-01-2012. ) Inferring fuzzy cognitive map models for gene regulatory networks from gene expression data.Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2012, , 598-601

Chen Y.;Mazlack L.;Lu L. (10-26-2012. ) Fuzzy cognitive maps development using ant colony optimization with local search procedure.2012 Annual Meeting of the North American Fuzzy Information Processing Society, NAFIPS 2012, ,

Zhang M.;Su S.;Bhatnagar R.;Hassett D.;Lu L. (07-24-2012. ) Prediction and analysis of the protein interactome in Pseudomonas aeruginosa to enable network-based.PLoS ONE, , 7 (7 ) ,

Deng J.;Tan L.;Lin X.;Lu Y.;Lu L. (01-01-2012. ) Exploring the optimal strategy to predict essential genes in microbes.Biomolecules, , 2 (1 ) ,1-22

Feng X.;Krishnan K.;Richie D.;Aimanianda V.;Hartl L.;Grahl N.;Powers-Fletcher M.;Zhang M.;Fuller K.;Nierman W.;Lu L.;Latgé J.;Woollett L.;Newman S.;Cramer R.;Rhodes J.;Askew D. (10-01-2011. ) Haca-independent functions of the ER stress sensor irea synergize with the canonical UPR to influenc.PLoS Pathogens, , 7 (10 ) ,

Ren J.;Jegga A.;Zhang M.;Deng J.;Liu J.;Gordon C.;Aronow B.;Lu L.;Zhang B.;Ma J. (09-01-2011. ) A Drosophila model of the neurodegenerative disease SCA17 reveals a role of RBJ-J/Su(H) in modulatin.Human Molecular Genetics, , 20 (17 ) ,3424-3436

Zhang M.;Zhu C.;Jacomy A.;Lu L.;Jegga A. (06-10-2011. ) The orphan disease networks.American Journal of Human Genetics, , 88 (6 ) ,755-766

Deng J.;Deng L.;Su S.;Zhang M.;Lin X.;Wei L.;Minai A.;Hassett D.;Lu L. (01-01-2011. ) Investigating the predictability of essential genes across distantly related organisms using an inte.Nucleic Acids Research, , 39 (3 ) ,795-807

Zhang M.;Fang C.;Xu Y.;Bhatnagar R.;Lu L. (12-01-2010. ) An Integrative scoring approach to identify transcriptional regulations controlling lung surfactant .Proceedings - IEEE International Conference on Data Mining, ICDM, , 787-792

Gordon S.;Deng J.;Lu L.;Davidson W. (10-01-2010. ) Proteomic characterization of human plasma high density lipoprotein fractionated by gel filtration c.Journal of Proteome Research, , 9 (10 ) ,5239-5249

Zhang M.;Lu L. (09-16-2010. ) Investigating the validity of current network analysis on static conglomerate networks by protein ne.BMC Bioinformatics, , 11 ,

Deng J.;Wang W.;Lu L.;Ma J. (09-10-2010. ) A two-dimensional simulation model of the bicoid gradient in Drosophila.PLoS ONE, , 5 (4 ) ,

He F.;Wen Y.;Cheung D.;Deng J.;Lu L.;Jiao R.;Ma J. (08-05-2010. ) Distance measurements via the morphogen gradient of Bicoid in Drosophila embryos.BMC Developmental Biology, , 10 ,

Xu Y.;Zhang M.;Wang Y.;Kadambi P.;Dave V.;Lu L.;Whitsett J. (07-26-2010. ) A systems approach to mapping transcriptional networks controlling surfactant homeostasis.BMC Genomics, , 11 (1 ) ,

Zhang M.;Deng J.;Fang C.;Zhang X.;Lu L. (07-07-2010. ) Molecular Network Analysis and Applications.Knowledge-Based Bioinformatics: From Analysis to Interpretation, , 251-287

He F.;Wen Y.;Deng J.;Lin X.;Lu L.;Jiao R.;Ma J. (10-14-2008. ) Probing Intrinsic Properties of a Robust Morphogen Gradient in Drosophila.Developmental Cell, , 15 (4 ) ,558-567

Huang Y.J.;Hang D.;Lu L.J.;Tong L.;Gerstein M.B.;Montelione G.T. (10-01-2008. ) Targeting the human cancer pathway protein interaction network by structural genomics.Molecular and Cellular Proteomics, , 7 (10 ) ,2048-2060

Wu L.;Hwang S.I.;Rezaul K.;Lu L.J.;Mayya V.;Gerstein M.;Eng J.K.;Lundgren D.H.;Han D.K. (08-01-2007. ) Global survey of human T leukemic cells by integrating proteomics and transcriptomics profiling.Molecular and Cellular Proteomics, , 6 (8 ) ,1343-1353

Lu L.J.;Sboner A.;Huang Y.J.;Lu H.X.;Gianoulis T.A.;Yip K.Y.;Kim P.M.;Montelione G.T.;Gerstein M.B. (07-01-2007. ) Comparing classical pathways and modern networks: towards the development of an edge ontology.Trends in Biochemical Sciences, , 32 (7 ) ,320-331

Flores S.;Lu L.;Yang J.;Carriero N.;Gerstein M. (05-22-2007. ) Hinge Atlas: Relating protein sequence to sites of structural flexibility.BMC Bioinformatics, , 8 ,

Kim P.;Lu L.;Xia Y.;Gerstein M. (12-01-2006. ) Relating three-dimensional structures to protein networks provides evolutionary insights.Science, , 314 (5807 ) ,1938-1941

Xia Y.;Lu L.J.;Gerstein M. (03-17-2006. ) Integrated prediction of the helical membrane protein interactome in yeast.Journal of Molecular Biology, , 357 (1 ) ,339-349

Lu L.;Xia Y.;Paccanaro A.;Yu H.;Gerstein M. (07-01-2005. ) Assessing the limits of genomic data integration for predicting protein networks.Genome Research, , 15 (7 ) ,945-953

Lu L.;Xia Y.;Yu H.;Rives A.;Lu H.;Schubert F.;Gerstein M. (06-15-2005. ) Protein Interaction Prediction by Integrating Genomic Features and Protein Interaction Network Analy.Data Analysis and Visualization in Genomics and Proteomics, , 61-81

Academic - Cincinnati Children's Hospital Medical Center
Cincinnati  Ohio, 45229
Phone: 513-636-8720
long.lu@cchmc.org