Guan Lab

Department of Computational Medicine & Bioinformatics
Found 58 results
Author Title [ Type(Desc)] Year
Journal Article
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.
Ku CJ, Sekiguchi JM, Panwar B, Guan Y, Takahashi S, Yoh K, Maillard I, Hosoya T, Engel JD.  2017.  GATA3 abundance is a critical determinant of T cell receptor beta allelic exclusion. Mol Cell Biol. Mar 20. pii: MCB.00052-17. doi: 10.1128/MCB.00052-17.
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.
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.
Panwar B, Menon R, Eksi R, Li H, Omenn GS, Guan Y.  2016.  Genome-wide Functional Annotation of Human Protein-coding Splice Variants Using Multiple Instance Learning.. J Proteome Res.
Guan Y, Myers CL, Lu R, Lemischka IR, Bult CJ, Troyanskaya OG.  2008.  A genomewide functional network for the laboratory mouse.. PLoS Comput Biol. 4(9):e1000165.
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.
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.
Hill SM, Heiser LM, Cokelaer T, Zhu F, others, Guan Y, others, Stolovitzky G, Saez-Rodriguez J, Mukherjee S.  2016.  Inferring causal molecular networks: empirical assessment through a community-based effort.. Nat Methods. 13(4):310-8.
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.
Panwar B, Omenn GS, Guan Y.  2017.  miRmine: A Database of Human miRNA Expression Profiles.. Bioinformatics. Jan 19. pii: btx019. doi: 10.1093/bioinformatics/btx019.
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.
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.
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.
Li H-D, Menon R, Eksi R, Guerler A, Zhang Y, Omenn GS, Guan Y.  2016.  A Network of Splice Isoforms for the Mouse.. Sci Rep. 6:24507.
Li H, Li T, Quang D, Guan Y.  2018.  Network propagation predicts drug synergy in cancers. Cancer Research. Jul 27. pii: canres.0740.2018. doi: 10.1158/0008-5472.CAN-18-0740
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.
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.
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.
Zhu F, Guan Y.  2014.  Predicting Dynamic Signaling Network Response under Unseen Perturbations.. Bioinformatics.
Guan Y, Myers CL, Hess DC, Barutcuoglu Z, Caudy AA, Troyanskaya OG.  2008.  Predicting gene function in a hierarchical context with an ensemble of classifiers.. Genome Biol. 9 Suppl 1:S3.
Keller A, Gerkin RC, Guan Y, Dhurandhar A, Turu G, Szalai B, Mainland JD, Ihara Y, Yu CW, Wolfinger R et al..  2017.  Predicting human olfactory perception from chemical features of odor molecules.. Science. Feb 20. pii: eaal2014. doi: 10.1126/science.aal2014.
Guan Y, Li T, Zhang HJ, Zhu F, Omenn GS.  2018.  Prioritizing Predictive Biomarkers for Gene Essentiality in Cancer Cells with mRNA Expression Data and DNA Copy Number Profile. Bioinformatics. 2018 Jun 15. doi: 10.1093/bioinformatics/bty467
Li H-D, Omenn GS, Guan Y.  2016.  A proteogenomic approach to understand splice isoform functions through sequence and expression-based computational modeling.. Brief Bioinform.
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.

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