Publications

2020-present (Vanderbilt)
Banerjee A, Herring CA, Chen B, Kim H, Simmons AJ, Southard-Smith AN, Allaman MM, White JR, Macedonia MC, McKinley ET, Ramirez Solano MA, Scoville EA, Liu Q, Wilson KT, Coffey RJ, Washington MK, Goettel JA, Lau KS . 2020. Succinate Produced by Intestinal Microbes Promotes Specification of Tuft Cells to Suppress Ileal Inflammation. Gastroenterology: S0016-5085(20)35068-X.
Brubaker DK, Kumar MP, Chiswick EL, Gregg C, Starchenko A, Vega PN, Southard-Smith AN, Simmons AJ, Scoville EA, Coburn LA, Wilson KT, Lau KS , Lauffenburger DA. 2020. An interspecies translation model implicates integrin signaling in infliximab-resistant inflammatory bowel disease. Science Signaling 13(643): eaay3258.
Southard-Smith AN, Simmons AJ, Chen B, Jones AL, Ramirez Solano MA, Vega PN, Scurrah CR, Zhao Y, Brenan MJ, Xuan J, Shrubsole MJ, Porter EB, Chen X, Brenan CJH, Liu Q, Quigley LMN*, Lau KS* . 2020. Dual indexed library design enables compatibility of in-Drop single-cell RNA-sequencing with exAMP chemistry sequencing platforms. BMC Genomics 21: 456. *Corresponding Authors
Islam, M, Chen, B, Spraggins, JM, Kelly, RT, Lau, KS. 2020. Use of Single Cell -Omic Technologies to Study the Gastrointestinal Tract and Diseases, From Single Cell Identities to Patient Features. Gastroenterology 159(2):453-466.
2019-2020 (Vanderbilt)
Heiser, CN,Lau, KS. 2020. A quantitative framework for evaluating single-cell data structure preservation by dimensionality reduction techniques. Cell Reports 31(5):107576.
Rozenblatt-Rosen, O, Regev, A, Oberdoerffer, P, Nawy, T, Hupalowska, A, Rood, JE, Ashenberg, O, Cerami, E, Coffey, RJ, Demir, E, Ding, L, Esplin, ED, Ford, JM, Goecks, J, Ghosh, S, Gray, JW, Guinney, J, Hanlon, SE, Hughes, SK, Hwang, ES, Iacobuzio-Donahue, CA, Jané-Valbuena, J, Johnson, BE, Lau, KS, Lively, T, Mazzilli, SA, Pe'er, D, Santagata, S, Shalek, AK, Schapiro, D, Snyder, MP, Sorger, PK, Spira, AE, Srivastava, S, Tan, K, West, RB, Williams, EH; Human Tumor Atlas Network. 2020. The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution. Cell. 181(2):236-249.
Yang, X, Graff, SM, Heiser, CN, Ho, KH, Chen, B, Simmons, AJ, Southard-Smith, AN, David, G, Jacobson, DA, Kaverina, I, Wright, CVE, Lau, KS, Gu, G. 2020.Coregulator Sin3a Promotes Postnatal Murine β-Cell Fitness by Regulating Genes in Ca2+ Homeostasis, Cell Survival, Vesicle Biosynthesis, Glucose Metabolism, and Stress Response. Diabetes 69(6):1219-1231.
Min, J, Vega, PN, Engevik, AC, Williams, JA, Yang, Q, Patterson, LM, Simmons, AJ, Bilton, RJ, Betts, JW, Lau, KS, Magness, ST, Goldenring, JR, Choi, E. 2019. Heterogeneity and dynamics of active Kras-induced pre-neoplastic lineages from mouse stomach. Nature Communications, 10(1): 5549.
2019 (Vanderbilt)
Liu, Q, Sheng, Q, Ping, J, Ramirez, MA, Lau, KS, Coffey, R, Shyr, Y. 2019.scRNABatchQC: Multi-samples quality control for single cell RNA-seq data. Bioinformatics 35(24):5306-5308.
Vasaikar, S, Huang, C, Wang, X, Petyuk, VA, Savage, SR, Wen, B, Dou, Y, Zhang, Y, Shi, Z, Arshad, OA, Gritsenko, MA, Zimmerman, LJ, McDermott, JE, Clauss, TR, Moore, RJ, Zhao, R, Monroe, ME, Wang, YT, Chambers, MC, Slebos, RJC, Lau, KS, Mo, Q, Ding, L, Ellis, M, Thiagarajan, M, Kinsinger, CR, Rodriguez, H, Smith, RD, Rodland, KD, Liebler, DC, Liu, T, Zhang, B; Clinical Proteomic Tumor Analysis Consortium. 2019.Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities. Cell 177(4):1035-1049.
Howard, AM, LaFever, KS, Fenix, AM, Scurrah, CR, Lau, KS, Burnette, DT, Bhave, G, Ferrell, N, Page-McCaw, A. 2019. DSS-induced damage to basement membranes is repaired by matrix replacement and crosslinking. Journal of Cell Sciences 132(7): jcs226860.
Manolopoulou, M, Matlock, BK, Nlandu-Khodo, S, Simmons, AJ, Lau, KS, Phillips-Mignemi, M, Ivanova, A, Alford, CE, Flaherty, DK, Gewin, LS. 2019. Improved cell cycle analysis of proximal tubules after renal injury. American Journal of Physiology-Renal Physiology 316(5):F847-F855.
Foegeding, NJ, Raghunathan, K, Campbell, AM, Kim, SW, Lau, KS, Kenworthy, AK, Cover, TL, Ohi, MD. 2019. Intracellular degradation of Helicobacter pylori VacA toxin as a determinant of gastric epithelial cell viability. Infection and Immunity 87(4):e00783-18.
2018-2019 (Vanderbilt)
Vega, PN, Lau, KS*, Goldenring, JR*. 2019. Not all insults are created equal for awakening dormant stem cell abilities. Cellular and Molecular Gastroenterology and Hepatology 7(3):619-621. *Corresponding Authors
Liu, J, Banerjee, A, Herring, CA, Attalla, J, Hu, R, Xu, Y, Shao, Q, Simmons, AJ, Dadi, PK, Wang, S, Jacobson, DA, Liu, B, Hodges, E, Lau, KS*, Gu, G*. 2019. Neurog3-Independent Methylation Is the Earliest Detectable Mark Distinguishing Pancreatic Progenitor Identity. Developmental Cell 48(1):49-63. *Corresponding Authors
Scurrah, CR, Simmons, AJ, Lau, KS. 2019. Single-Cell Mass Cytometry of Archived Human Epithelial Tissue for Decoding Cancer Signaling Pathways. Methods in Molecular Biology 1884:215-229.
Maseda, D, Banerjee, A, Johnson, EM, Washington, MK, Kim, H, Lau, KS, Crofford, LJ. 2018. mPGES-1-Mediated Production of PGE2 and EP4 Receptor Sensing Regulate T Cell Colonic Inflammation. Frontiers in Immunology 9:2954.
Chen, B, Herring, CA, Lau, KS. 2019. pyNVR: Investigating factors affecting feature selection from scRNA-seq data for lineage reconstruction. Bioinformatics 35(13):2335-2337.
Liu, Q*, Herring, CA, Sheng, Q, Ping, J, Simmons, AJ, Chen, B, Banerjee, A, Li, W, Gu, G, Coffey, RJ, Shyr, Y, Lau, KS*. 2018. Quantitative assessment of cell population diversity in single-cell landscapes. PLoS Biology 16(10):e2006687. *Corresponding Authors
2017-2018 (Vanderbilt)
Banerjee, A, McKinley, ET, von Molke, J, Coffey, RJ, Lau, KS. 2018. Interpreting heterogeneity in intestinal tuft cell structure and function. Journal of Clinical Investigation 5(4): 539-48.
Herring, CA, Chen, B, McKinley, ET, Lau, KS. 2018. Single-cell computational strategies for lineage reconstruction in tissue systems. Cellular and Molecular Gastroenterology and Hepatology 5(4): 539-48.
Kim, SW, Banerjee, A, Starchenko, A, Yilmaz, OH, Lau, KS. 2018. Defining the intestinal stem cell niche for tissue engineering and disease modeling. Encyclopedia of Tissue Engineering and Regenerative Medicine.
Herring, CA, Banerjee, A, McKinley, ET, Simmons, AJ, Ping, J, Roland, JT, Franklin, JL, Liu, Q, Gerdes, MJ, Coffey, RJ, Lau, KS. 2018. Unsupervised trajectory analysis of single-Cell RNA-seq and imaging data reveals alternative tuft cell origins in the gut. Cell Systems 6(1): 37-51. *Cover Article
Kim, SW, Ehrman, J, Ahn, MR, Kondo, J, Mancheno Lopez, AA, Oh, YS, Kim, HX, Crawley, SW, Goldenring, JR, Tyska, MJ, Rericha, EC, Lau, KS. 2017. Shear stress induces non-canonical autophagy in intestinal epithelial monolayers. Molecular Biology of the Cell 28(22):3034-56.
McKinley, ET, Sui, Y, Al-Kofahi, Y, Millis, BA, Tyska, MJ, Roland, JT, Santamaria-Pang, A, Ohland, CL, Jobin, C, Franklin, JL, Lau, KS , Gerdes, MJ, Coffey, RJ. 2017. Optimized multiplex immunofluorescence single-cell analysis reveals tuft cell heterogeneity. JCI Insight 2(11): pii: 93487.
2015-2017 (Vanderbilt)
Almohazey, D, Lo, YH, Vossler, CV, Simmons, AJ, Hsieh, JJ, Bucar, EB, Schumacher, MA, Hamilton, KE, Lau, KS , Shroyer, NF, Frey, MR. 2017. The ErbB3 receptor tyrosine kinase negatively regulates Paneth cells by PI3K-dependent suppression of Atoh1. Cell Death and Differentiation 24(5):855-65.
Simmons, AJ, Lau, KS. 2016. Deciphering tumor heterogeneity from FFPE tissues: its promise and challenges. Molecular and Cellular Oncology 4(1):e1260191.
Simmons, AJ, Scurrah, CR, McKinley, ET, Herring CA, Irish, JM, Washington, MK, Coffey, RJ, Lau, KS. 2016. Impaired coordination between signaling pathways is revealed in human colorectal cancer using single-cell mass cytometry of archival tissue blocks. Science Signaling 9(449):rs11. *Cover Article
Gierut, JJ, Wood, LB, Lau, KS , Lin, YJ, Genetti, C, Samatar, AA, Lauffenburger, DA, Haigis, KM. 2015. Network-level effects of kinase inhibitors modulate TNF-α-induced apoptosis in the intestinal epithelium. Science Signaling 8(407):ra129.
Simmons, AJ, Banerjee, A, McKinley, ET, Scurrah, CR, Herring CA, Gewin LS, Masuzaki R, Karp SJ, Franklin, JL, Gerdes, MJ, Irish, JM, Coffey, RJ, Lau, KS. 2015. Cytometry-based single cell analysis of intact epithelial signaling reveals MAPK activation divergent from TNF-α-induced apoptosis in vivo. Molecular Systems Biology 11(10):835.
Lyons, J, Herring, CA, Banerjee, A, Simmons, AJ, Lau, KS. 2015. Multiscale analysis of the murine intestine for modeling human diseases. Integrative Biology 7(7):740-57.
2009-2013 (MIT/Harvard)
Lau, KS, Schrier, SB, Gierut, J, Lyons, J, Lauffenburger, DA, Haigis, KM. 2013. Network analysis of differential Ras isoform mutation effects on intestinal epithelial responses to TNF-α. Integrative Biology 5(11):1355-1365.
Miraldi, ER, Sharfi, H, Friedline, RH, Johnson, H, Zhang, T, Lau, KS, Ko, HJ, Curran, TG, Haigis, KM, Yaffe, MB, Bonneau, R, Lauffenburger, DA, Kahn, BB, Kim, JK, Neel, BG, Saghatelian, A, White, FM. 2013. Molecular network analysis of phosphotyrosine and lipid metabolism in hepatic PTP1b deletion mice. Integrative Biology 5(7): 940-963.
Lau, KS, Cortez-Retamozo, V, Philips, SR, Pittet, MJ, Lauffenburger, DA, Haigis, KM. 2012. Multi-scale in vivo systems analysis reveals the influence of immune cells on TNF-α-induced apoptosis in the intestinal epithelium. PLoS Biology 10(9):e1001393.
Lau, KS, Zhang, T, Kendall, KR, Lauffenburger, D, Gray, NS, Haigis, KM. 2012. BAY61-3606 affects the viability of colon cancer cells in a genotype-directed manner. PLoS One 7(7):e41343.
Lau, KS, Juchheim, AM, Cavaliere, KR, Philips, SR, Lauffenburger, DA, Haigis, KM. 2011. In vivo systems analysis identifies spatial and temporal aspects of the modulation of TNF-α-induced apoptosis and proliferation by MAPKs. Science Signaling 4(165):ra16.
Lau, KS, Haigis, KM. 2009. Non-redundancy within the RAS oncogene family: insights into mutational disparities in cancer. Molecule and Cells 28(4):315-320.
2008-2011 (Lunenfeld Institute)
Mkhikian, H, Grigorian, A, Li, CF, Chen, HL, Newton, B, Zhou, RW, Beeton, C, Torossian, S, Tatarian, GG, Lee, SU, Lau, K, Walker, E, Siminovitch, KA, Chandy, KG, Yu, Z, Dennis, JW, Demetriou, M. 2011. Genetics and the environment converge to dysregulate N-glycosylation in multiple sclerosis. Nature Communications 2: 334.
Dennis, JW, Lau, KS, Demetriou, M, Nabi, IR. 2009. Adaptive regulation at the cell surface by N-glycosylation. Traffic 10(11):1569-1578.
Beheshti Zavareh, R, Lau, KS, Hurren, R, Datti, A, Ashline, DJ, Gronda, M, Cheung, P, Simpson, CD, Liu, W, Wasylishen, AR, Boutros, PC, Shi, H, Vengopal, A, Jurisica, I, Penn, LZ, Reinhold, VN, Ezzat, S, Wrana, J, Rose, DR, Schachter, H, Dennis, JW, Schimmer, AD. 2008. Inhibition of the sodium/potassium ATPase impairs N-glycan expression and function. Cancer Research 68(16): 6688-6697.
Lau, KS , Nabi, IR, Demetriou, M, and Dennis, JW. 2008. Golgi N-glycan processing and galectin functions. Animal Lectins: A Functional View ed. Gerado R. Vasta and Hafiz Ahmed, CRC Press (Taylor and Francis): 285-302.
Lau, KS, Dennis, JW. 2008. N-Glycans in cancer progression. Glycobiology 18(10): 750-760.
2007-2008 (Lunenfeld Institute)
Katz, D, Ito, E, Lau, KS, Mocanu, JD, Bastianutto, C, Schimmer, AD, Liu, FF. 2008. Increased efficiency for performing colony formation assays in 96-well plates: novel applications to combination therapies and high-throughput screening. Biotechniques 44(2):ix-xiv.
Lau, KS, Khan, S, Dennis, JW. 2008. Genome-scale identification of UDP-GlcNAc-dependent pathways. Proteomics 8(16):3294-3302.
Lau, KS, Partridge, EA, Grigorian, A, Silvescu, CI, Reinhold, VN, Demetriou, M, Dennis, JW. 2007. Complex N-glycan number and degree of branching cooperate to regulate cell proliferation and differentiation. Cell 129(1): 123-134.
Mendelsohn, R, Cheung, P, Berger, L, Partridge, E, Lau, K, Datti, A, Pawling, J, Dennis, JW. 2007. Complex N-glycan and metabolic control in tumor cells. Cancer Research 67(20): 9771-9780.
2002-2003 (University of Toronto Undergrad)
Cheung, J, Estivill, X, Khaja, R, MacDonald, JR, Lau, K, Tsui, LC, Scherer, SW. 2003. Genome-wide detection of segmental duplications and potential assembly errors in the human genome sequence. Genome Biology 4(4): R25.
Lau, KS, Mantas, M, Chass, GA, Ferretti, FH, Estrada M, Zamarbide G, Csizmadia, IG. 2002. Ab initio and DFT conformational analysis of selected flavones: 5,7-dihydroxyflavone (chrysin) and 7,8-dihydroxyflavone. Canadian Journal of Chemistry 80(7): 845-855.