Computational Biologist / Biostatistician
Regenerative Biology Laboratory
Morgridge Institute for Research
email: lengning1@gmail.com
I graduated from the Ph.D. program of Statistics at University of Wisconsin Madison in 2014. My Ph.D. advisor is Professor Christina Kendiorski. I'm currently working as a Computational Biologist / Biostatistician at Morgridge Institute for Research. I'm interested in computational and statistical methods for Next generation sequencing data analysis, especially RNA-Seq data analysis.
N. Leng, J. Choi, L. Chu, J. Thomson, C. Kendziorski, R. Stewart, OEFinder: A user interface to identify and visualize ordering effects in single cell RNA-seq data. Bioinformatics, 2016
N. Leng*, L. Chu*, C. Barry, Y. Li, J. Choi, X. Li, P. Jiang, R. Stewart, J.A. Thomson, and C. Kendziorski, Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq. Nature Methods, 2015
N. Leng, Y. Li, B.E. Mcintosh, B. K. Nguyen, B. Duffin, S. Tian, J. A. Thomson, C. Dewey, R. Stewart, and C. Kendziorski. EBSeq-HMM: A Bayesian approach for identifying gene-expression changes in ordered RNA-seq experiments. Bioinformatics, 2015
K.A. Tran, S.A. Jackson, Z.PG. Olufs, N. Leng, C. Kendziorski, S.Roy and R. Sridharan, Temporal acquisition of epigenetic and transcriptional modulation during cell fate change. Nature Communications, 2015.
T. Zhang, A. Patro, N.Leng and S. Banerjee, A Wireless Spectrum Analyzer in Your Pocket. Hotmobile, 2015
T. Zhang, N. Leng, S. Banerjee, A Vehicle-based Measurement Framework for Enhancing Whitespace Spectrum Databases, ACM Mobicom 2014 (Best presentation award of Mobicom 2014)
E.A. Hines, R.J. Szakaly, N. Leng, J.M. Verheyden; A.T. Webster, C. Kendziorski, L.A. Rosenthal, J.E. Gern, R.L. Sorkness, X. Sun, R.F. Lemanske, Comparison of Temporal Transcriptomic Profiles from Immature Lungs of Two Rat Strains Reveals a Viral Response Signature Associated with Chronic Lung Dysfunction, Plos ONE, 2014
H.C. St. John, K.A. Bishop, M.B. Meyer, N.A. Benkusky, N. Leng, C. Kendziorski, L. Bonewald and J.W. Pike, The Osteoblast to Osteocyte Transition: Epigenetic Changes and Response to the Vitamin D3 Hormone. Molecular Endocrinology, 2014
C. Yao, N. Leng, K. Weigel, K.E. Lee, C.D. Engelman and K.J. Meyers. Prediction of Genetic Contributions to Complex Traits using Whole Genome Sequencing Data. BMC Proceedings, 2014
N. Leng, J.A. Dawson, J.A. Thomson, V. Ruotti, A.I. Rissman, B.M.G. Smits, J.D. Haag, M.N. Gould, R.M. Stewart, and C. Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments. Bioinformatics, 2013 (Featured highly-cited article from Bioinformatics in 2014)
R. Stewart, C.A. Rascón, S. Tian, J. Nie, M.D. Probasco, J.M. Bolin, H. Ardalani, R.J. Wagner, L.F. Chu, C. Barry, N. Leng, S. Sengupta, M. Volkmer, B. Habermann, E.M. Tanaka, J.A. Thomson, C.N. Dewey. Comparative RNA-seq Analysis in the Unsequenced Axolotl: The Oncogene Burst Highlights Early Gene Expression in the Blastema. Plos Computational Biology, 2013
B.M. G. Smits, J.D. Haag, A.I. Rissman, D. Sharma, A. Tran, A.A. Schoenborn, R.C. Baird, D.S. Peifer, D.Q. Leinweber, M.J. Muelbl, M.L. Amanda, M.R. Eichelberg, N. Leng, C. Kendziorski, M.C. John, P.A. Powers, C.M. Alexander, M.N. Gould. The Gene Desert Mammary Carcinoma Susceptibility Locus Mcs1a Regulates Nr2f1 Modifying Mammary Epithelial Cell Differentiation and Proliferation. Plos Genetics, 2013
NSF Travel Fellowship for RECOMB 2013, Beijing, China, 2013
Shapiro Fellowship, 2013-2014
RAB Poster Award, ENAR 2014, Baltimore, MD, 2014
Vilas conference presentation award, 2014
BioC 2015 scholarship, Seattle, WA, 2015
International Biometric Society, Eastern North American Region (ENAR) Annual Meeting, Miami, FL, March 2011
BioC 2015, Seattle, WA, July 2015
International Biometric Society, Eastern North American Region (ENAR) Annual Meeting, Miami, FL, March 2015
International Biometric Society, Eastern North American Region (ENAR) Annual Meeting, Baltimore, MD, March 2014
17th Annual International Conference on Research in Computational Molecular Biology (RECOMB2013), Beijing, China, April 2013
RECOMB-SEQ: Third annual recomb satellite workshop on massively parallel sequencing, Beijing, China, April 2013
Conference on New Statistical Methods for Next Generation Sequencing Data Analysis, Ames, IA, May 2012
International Biometric Society, Eastern North American Region (ENAR) Annual Meeting, Washington, DC, April 2012
Symposium on Integration of Mathematical and Biological Sciences (MathBio3: Modeling), Madison, WI, September 2011
EBSeq (with GUI)
EBSeq: An R package for RNA-Seq Differential Expression Analysis at both gene and isoform level
EBSeq-HMM
EBSeq: A Bayesian approach for identifying gene-expression changes in ordered RNA-seq experiments
Oscope
Oscope: a statistical pipeline for identifying oscillatory genes in unsynchronized single cell RNA-seq experiments
OEFinder (with GUI)
Identify ordering effect genes in single cell RNA-seq data
SCPattern (with GUI)
Identify and characterize expression changes in single cell RNA-seq experiments with ordered conditions
Enrichment analysis tool (with GUI)