Guan Lab

Department of Computational Medicine & Bioinformatics
Found 47 results
Author Title [ Type(Desc)] Year
Journal Article
Zhu F, Panwar B, Guan Y.  2015.  Algorithms for modeling global and context-specific functional relationship networks.. Brief Bioinform.
Li H, Zhang Y, Guan Y, Menon R, Omenn GS.  2017.  Annotation of Alternatively Spliced Proteins and Transcripts with Protein-Folding Algorithms and Isoform-Level Functional Networks.. Methods Mol Biol.. (1558):415-436.
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.
Guan Y, Ramalingam S, Nagegowda D, Taylor PWJ, Chye M-L.  2008.  Brassica juncea chitinase BjCHI1 inhibits growth of fungal phytopathogens and agglutinates Gram-negative bacteria.. J Exp Bot. 59(12):3475-84.
Guan Y, Chye M-L.  2008.  A Brassica juncea chitinase with two-chitin binding domains show anti-microbial properties against phytopathogens and Gram-negative bacteria.. Plant Signal Behav. 3(12):1103-5.
Guan Y, Dunham MJ, Troyanskaya OG, Caudy AA.  2013.  Comparative gene expression between two yeast species.. BMC Genomics. 14:33.
Zhu F, Panwar B, Dodge HH, Li H, Hampstead BM, Albin RL, Paulson HL, Guan Y.  2016.  COMPASS: A computational model to predict changes in MMSE scores 24-months after initial assessment of Alzheimer's disease.. Sci Rep. 6:34567.
Menon R, Panwar B, Eksi R, Kleer C, Guan Y, Omenn GS.  2015.  Computational Inferences of the Functions of Alternative/Non-Canonical Splice Isoforms Specific to HER2+/ER-/PR- Breast Cancers, a Chromosome 17 C-HPP Study.. J Proteome Res.
Peña-Castillo L, Tasan M, Myers CL, Lee H, Joshi T, Zhang C, Guan Y, Leone M, Pagnani A, Kim WKyu et al..  2008.  A critical assessment of Mus musculus gene function prediction using integrated genomic evidence.. Genome Biol. 9 Suppl 1:S2.
Sieberts SK, Zhu F, García-García J, Stahl E, Pratap A, Pandey G, Pappas D, Aguilar D, Anton B, Bonet J et al..  2016.  Crowdsourced assessment of common genetic contribution to predicting anti-TNF treatment response in rheumatoid arthritis.. Nat Commun. 7:12460.
Allen GI, Amoroso N, Anghel C, Balagurusamy V, Bare CJ, Beaton D, Bellotti R, Bennett DA, Boehme K, Boutros PC et al..  2016.  Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease.. Alzheimers Dement.
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.
Lui W-Y, Wong EWP, Guan Y, Lee WM.  2007.  Dual transcriptional control of claudin-11 via an overlapping GATA/NF-Y motif: positive regulation through the interaction of GATA, NF-YA, and CREB and negative regulation through the interaction of Smad, HDAC1, and mSin3A.. J Cell Physiol. 211(3):638-48.
Menon S, Lu C, Menon R, Schwartz J, Guan Y.  2016.  Effects of Antioxidants in Human Cancers: Differential Effects on Non-Coding Intronic RNA Expression.. Antioxidants (Basel) (The first author of this paper is a high-school trainee --now in Harvard-- in my lab, who entered the finalist of Intel Talent Search based on this piece of work.). 5(1)
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.
Guan Y, Dunham MJ, Troyanskaya OG.  2007.  Functional analysis of gene duplications in Saccharomyces cerevisiae.. Genetics. 175(2):933-43.
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.
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.
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.

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