Guan Lab

Department of Computational Medicine & Bioinformatics
Found 57 results
Author Title Type [ Year(Asc)]
Li H, Menon R, Govindarajoo B, Panwar B, Zhang Y, Omenn GS, Guan Y.  2015.  Functional Networks of Highest-Connected Splice Isoforms, from the Chromosome 17 Human Proteome Project.. J Proteome Res.
Guan Y, Martini S, Mariani LH.  2015.  Genes Caught In Flagranti: Integrating Renal Transcriptional Profiles With Genotypes and Phenotypes.. Semin Nephrol. 35(3):237-44.
Panwar B, Menon R, Eksi R, Omenn GS, Guan Y.  2015.  MI-PTV: A Tool for Visualizing the Chromosome-centric Human Proteome.. J Proteome Res.
Li H-D, Omenn GS, Guan Y.  2015.  MIsoMine: a genome-scale high-resolution data portal of expression, function and networks at the splice isoform level in the mouse.. Database (Oxford). 2015:bav045.
Horvatovich P, Lundberg EK, Chen Y-J, Sung T-Y, He F, Nice EC, Goode RJA, Yu S, Ranganathan S, Baker MS et al..  2015.  A Quest for Missing Proteins: update 2015 on Chromosome-Centric Human Proteome Project.. J Proteome Res.
Zhu F, Shi L, Engel JDouglas, Guan Y.  2015.  Regulatory network inferred using expression data of small sample size: application and validation in erythroid system.. Bioinformatics.
Shi L, Sierant MC, Gurdziel K, Zhu F, Cui S, Kolodziej KE, Strouboulis J, Guan Y, Tanabe O, Lim K-C et al..  2014.  Biased, Non-equivalent Gene-Proximal and -Distal Binding Motifs of Orphan Nuclear Receptor TR4 in Primary Human Erythroid Cells.. PLoS Genet. 10(5):e1004339.
Shi L, Lin Y-H, Sierant MC, Zhu F, Cui S, Guan Y, Sartor MA, Tanabe O, Lim K-C, Engel JDouglas.  2014.  Developmental transcriptome analysis of human erythropoiesis.. Hum Mol Genet. 23(17):4528-42.
Li H-D, Menon R, Omenn GS, Guan Y.  2014.  The emerging era of genomic data integration for analyzing splice isoform function.. Trends Genet. 30(8):340-347.
Ma Q, Ozel AB, Ramdas S, McGee B, Khoriaty R, Siemieniak D, Li H-D, Guan Y, Brody LC, Mills JL et al..  2014.  Genetic variants in PLG, LPA and SIGLEC 14 as well as smoking contribute to plasma plasminogen levels.. Blood.
Bethunaickan R, Berthier CC, Zhang W, Eksi R, Li H-D, Guan Y, Kretzler M, Davidson A.  2014.  Identification of Stage-Specific Genes Associated With Lupus Nephritis and Response to Remission Induction in (NZB × NZW)F1 and NZM2410 Mice.. Arthritis Rheumatol. 66(8):2246-58.
Zhu F, Shi L, Li H, Eksi R, Engel JDouglas, Guan Y.  2014.  Modeling Dynamic Functional Relationship Networks and Application to Ex Vivo Human Erythroid Differentiation.. Bioinformatics.
Omenn GS, Guan Y, Menon R.  2014.  A new class of protein cancer biomarker candidates: differentially expressed splice variants of ERBB2 (HER2/neu) and ERBB1 (EGFR) in breast cancer cell lines.. J Proteomics. 107:103-12.
Zhu F, Guan Y.  2014.  Predicting Dynamic Signaling Network Response under Unseen Perturbations.. Bioinformatics.
Li H-D, Menon R, Omenn GS, Guan Y.  2014.  Revisiting the identification of canonical splice isoforms through integration of functional genomics and proteomics evidence.. Proteomics. (Hong-dong Li was selected as the winner of the AB SCIEX Young Investigator Award for this work.)
Guan Y, Dunham MJ, Troyanskaya OG, Caudy AA.  2013.  Comparative gene expression between two yeast species.. BMC Genomics. 14:33.
Park CY, Wong AK, Greene CS, Rowland J, Guan Y, Bongo LA, Burdine RD, Troyanskaya OG.  2013.  Functional knowledge transfer for high-accuracy prediction of under-studied biological processes.. PLoS Comput Biol. 9(3):e1002957.
Yang Z-K, Niu Y-F, Ma Y-H, Xue J, Zhang M-H, Yang W-D, Liu J-S, Lu S-H, Guan Y, Li H-Y.  2013.  Molecular and cellular mechanisms of neutral lipid accumulation in diatom following nitrogen deprivation.. Biotechnol Biofuels. 6(1):67.
Caudy AA, Guan Y, Jia Y, Hansen C, DeSevo C, Hayes AP, Agee J, Alvarez-Dominguez JR, Arellano H, Barrett D et al..  2013.  A new system for comparative functional genomics of Saccharomyces yeasts.. Genetics. 195(1):275-87.
Eksi R, Li H-D, Menon R, Wen Y, Omenn GS, Kretzler M, Guan Y.  2013.  Systematically differentiating functions for alternatively spliced isoforms through integrating RNA-seq data.. PLoS Comput Biol. 9(11):e1003314.
Wong AK, Park CY, Greene CS, Bongo LA, Guan Y, Troyanskaya OG.  2012.  IMP: a multi-species functional genomics portal for integration, visualization and prediction of protein functions and networks.. Nucleic Acids Res. 40(Web Server issue):W484-90.
Guan Y, Gorenshteyn D, Burmeister M, Wong AK, Schimenti JC, Handel MAnn, Bult CJ, Hibbs MA, Troyanskaya OG.  2012.  Tissue-specific functional networks for prioritizing phenotype and disease genes.. PLoS Comput Biol. 8(9):e1002694.
Guan Y, Yao V, Tsui K, Gebbia M, Dunham MJ, Nislow C, Troyanskaya OG.  2011.  Nucleosome-coupled expression differences in closely-related species.. BMC Genomics. 12:466.
Guan Y, Ackert-Bicknell CL, Kell B, Troyanskaya OG, Hibbs MA.  2010.  Functional genomics complements quantitative genetics in identifying disease-gene associations.. PLoS Comput Biol. 6(11):e1000991.
Guan Y, Dunham M, Caudy A, Troyanskaya O.  2010.  Systematic planning of genome-scale experiments in poorly studied species.. PLoS Comput Biol. 6(3):e1000698.