Publications (selected):
For the cover article written for the lay public about genetics, genomics and the work of the Cheng lab, see http://www.rps.psu.edu/0109/model.html. The article is adapted from Keith’s concluding talk for the 2001 Penn State Frontiers of Science Lecture Series “Decoding Life’s Instruction Book: Genetics and Genomics.” The title of his talk, “A Model for Humans,” is also an article in Research Penn State, by Teresa Rafacz, September 2001, Volume 22, Issue 3.
All publications are PDF format unless otherwise noted:
- Cheng, KC, Katz SR, Lin AY, Xin X, Ding Y. Whole-Organism Cellular Pathology: A Systems Approach to Phenomics. In N. S. Foulkes (Ed.), Genetics, Genomics and Fish Phenomics. (2016) (pp. 89–115). ISBN: 9780128048009
- Canfield VA, Berg A, Peckins S, Wentzel SM, Ang KC, Oppenheimer S, Cheng KC. Molecular Phylogeography of a Human Autosomal Skin Color Locus Under Natural Selection. G3 3(11): 2059-67, 2013.
- Tsetskhladze ZR, Canfield VA, Ang KC, Wentzel SM, Reid KP, Berg AS, Johnson SL, Kawakami K, Cheng KC. Functional Assessment of Human Coding Mutations Affecting Skin Pigmentation Using Zebrafish. PloS ONE 7(10): e47398, October 2012 doi:10.1371/journal.pone.0047398
- Ang KC, Ngu MS, Reid KP, Teh MS, Aida ZS, Koh DXR, Berg A, Oppenheimer S, Salleh H, Clyde MM, Md-Zain BM, Canfield VA, Cheng K. Skin Color Variation in Orang Asli Tribes of Peninsular Malaysia. PLoS ONE 7(8): e42752, August 2012 doi:10.1371/journal.pone.0042752
- Valenzuela RK, Henderson MS, Walsh MH, Garrison NA, Kelch JT, Cohen-Barak O, Erickson DT, Meaney FJ, Walsh JB, Cheng KC, Ito S, Wakamatsu K, Frudakis F, Thomas M, Brilliant MH. Predicting Phenotype from Genotype: Normal Pigmentation. J Forensic Sci 55:315-322, 2010
- Cheng KC, Waldstein N. Unraveling genetic code: Social, moral questions arise from DNA (Text submitted as, “What does the human genome project mean to me”) Review & Opinion section, Harrisburg Patriot-News, Feb 15, 2009
- Zinnanti WJ, Lazovic J, Griffin K, Skvorak KJ, Paul HS, Homanics GE, Bewley MC, Cheng KC, LaNoue KF, Flanagan JM. Dual mechanism of brain injury and novel treatment strategy in maple syrup urine disease.Brain 2009; doi: 10.1093/brain/awp024. [For a copy of the paper, please send a request tosef13@psu.edu]
- Spitsbergen JM, Blazer VS, Bowser PR, Cheng KC, Cooper KR, Cooper TK, Frasca S Jr., Groman DB, Harper CM, Law JM, Marty GD, Smolowitz RM, St. Leger J, Wolf DC, Wolf JC. Finfish and aquatic invertebrate pathology resources for now and the future. Comparative Biochemistry and Physiology, Part C 149:249–257, 2009. [For a copy of the paper, please send a request to sef13@psu.edu]
- Cheng KC. Zebrafish experts speak (editorial). Zebrafish 5:9-24, 2008
- Ekker SC, Parichy DM, Cheng KC. Research implications of pigment biology in zebrafish. Zebrafish 5:233-235, 2008. PMID: 19133820
- Cheng KC. Skin color in fish and humans: Impacts on science and society. Zebrafish 5:237-242, 2008. PMID: 19133821
- Canada BA, Thomas GK, Cheng KC, Wang JZ, Liu Y. Automatic Lattice Detection in Near-Regular Histology Array Images. Proceedings of the IEEE International Conference on Image Processing (ICIP), San Diego, California, IEEE, October 2008
- Canada BA, Thomas GK, Cheng KC, Wang JZ, Liu Y. Towards Efficient Automated Characterization of Irregular Histology Images via Transformation to Frieze-Like Patterns. Proceedings of the ACM International Conference on Image and Video Retrieval (CIVR 2008), pp. 581-590, Niagara Falls, Canada, July 2008
- Cheng KC. Demystifying Skin Color and “Race”. In R.E. Hall (ed.): Racism in the 21st Century, Chapter 1, pp. 3-23, Springer, 2008
- Canada BA, Thomas GK, Cheng KC*, Wang JZ.* Automated segmentation and classification of zebrafish histology images for high-throughput phenotyping. Proceedings of the Third IEEE-NIH Life Science Systems and Applications Workshop, pp. 245-248, Washington, D.C., November 2007. (*equal contributors) ISBN number: 978-1-4244-1813-8
- Zinnanti WJ, Lazovic J, Housman C, LaNoue K, O’Callaghan JP, Simpson I, Woontner M, Goodman SI, Connor JR, Jacobs RE, Cheng KC. Mechanism of age-dependent susceptibility and novel treatment strategy in glutaric acidemia type I. J Clin Invest 117:3258-3270, 2007. PMID: 17932566
- Norton HL, Kittles RA, Parra E, McKeigue P, Mao X, Cheng KC, Canfield VA, Bradley DG, McEvoy B, Shriver MD. Genetic evidence for the convergent evolution of light skin in Europeans and East Asians. Molecular Biol Evol 24:710-722, 2007. PMID: 17182896
- Chi A, Valencia JC, Hu Z-Z, Watabe H, Yamaguchi H, Mangini NM, Huang H, Canfield VA, Cheng KC, Yang OF, Abe R, Yamagishi S, Shabanowitz J, Hearing VJ, Wu C, Appella E, Hunt DF. Proteomic and bioinformatic characterization of the biogenesis and function of melanosomes. J Proteome Res 5:3135-3144, 2006. PMID: 17081065
- Canada BA, Cheng KC, Wang JZ. QCHARM: A Novel Computational and Scientific Visualization Framework for Facilitating Discovery and Improving Diagnostic Reliability in Medicine. Proceedings of the American Medical Informatics Association Annual Symposium, pp. 870, Washington, D.C., November 2006
- Cheng KC, Canfield VA. The role of SLC24A5 in skin color. Invest Dermatol 16:836-838, 2006
- Moore JL, Rush LM, Breneman C, Mohideen M-AP, Cheng, KC. Zebrafish genomic instability mutants and cancer susceptibility. Genetics 174:585-600, 2006 (October cover article), 2006. PMID: 16888336
- Sabaliauskas NA, Foutz CA, Mest JR, Budgeon LR, Sidor A, Gershenson J, Joshi S, Cheng KC. High-throughput zebrafish histology. Methods 39:246-254, 2006. PMID: 16870470
- Zinnanti WJ, Lazovic J, Wolpert EB, Antonetti DA, Smith MB, Connor JR, Woontner M, Goodman SI, Cheng KC. New insights for glutaric aciduria type I. Brain 129:E55, 2006. PMID: 16870880
- Blasiole B, Canfield VA, Mohideen M-APK, Vollrath MA, Huss D, Dickman JD, Cheng KC, Fekete DM, Levenson, RL. Separate Na,K-Atpase genes are required for otolith formation and semicircular canal development in zebrafish. Dev Biol 294:148-160, 2006. PMID: 16566913
- Cheng KC. Bach’s Goldberg Variations: An artistic inspiration for art, science, medicine, and life. Wild Onions20:14-15, 2006
- Cheng KC. The golden mutation in zebrafish. Commentary #1, February 2006 PASPCR web-site posting.
- Zinnanti WJ, Lazovic J, Wolpert EB, Antonetti DA, Smith MB, Connor JR, Woontner M, Goodman SI, Cheng KC. A diet-induced mouse model for glutaric aciduria type I. Brain 129:899-910, 2006. PMID: 16446282
- Lamason RL, Mohideen M-AP, Mest JR, Wong AC, Norton HL, Aros MC, Juurynec MJ, Mao X, Humphreville VR, Humbert JE, Sinha S, Moore JL, Jagadeeswaran P, Ning G, Makalowska I, Zhao W, McKeigue PM, O’Donnell D, Kittles R, Parra EJ, Mangini NJ, Grunwald DJ, Shriver MD, Canfield VA, Cheng KC. SLC24A5 affects pigmentation in zebrafish and man. Science 310:1782-1786, 2005. (cover article) PMID: 16357253 [due to the large file size of the supplement and cover, we offer three versions: SciencePaperNoSuppl.pdf (the paper as presented in the journal; 457kb), SciencePaper&Suppl.pdf (the paper in the journal, including the supplementary data; 2857kb), and Science16Dec2005cover-full.jpg (just the cover, in high resolution, originally submitted with the caption, “Skin color is only gene deep”; 5814kb)]. Science 16 December 2005 “News of the Week”. – Learning Materials Using the Golden Story
- Croushore JA, Blasiole B, Riddle RC, Thisse C, Thisse B, Canfield VA, Robertson GP, Cheng KC, Levenson R. ptena and ptenb genes play distinct roles in zebrafish embryogenesis. Developmental Dynamics 234:911-921, 2005. PMID: 16193492
- Duffy KT, McAleer MF, Davidson WR, Kari L, Kari C, Liu C-G, Farber SA, Cheng KC, Mest JR, Wickstrom E, Dicker AP, Rodeck U. Coordinate control of cell cycle regulatory genes in zebrafish development tested by cyclin D1 knockdown with morpholino phosporodiamidates and hydroxyprolyl-phosophono peptide nucleic acids. Nucleic Acids Res 33:4914-4921, 2005. PMID: 16284195
- Cheng KC. As I See It: Use science to support global policy. Harrisburg Patriot-News, December 12, 2004, F1, 6.
- Ostrander GK, Cheng KC, Wolf JC, Wolfe MJ. Shark cartilage, cancer and the growing threat of pseudoscience. Cancer Res 64:8485-8491, 2004. PMID: 15574750
- Cheng KC. Zebrafish experts speak (editorial). Zebrafish 1:85-103, 2004
- Cheng KC. A life-span atlas for the zebrafish (announcement). Zebrafish 1:69, 2004
- Gerhard GS, Malek RL, Keller E, Murtha J, Cheng KC. Zebrafish, Killifish, neither fish, both fish? J Gerontol59:B873-B875, 2004. PMID: 15472148
- Moore JL, Gestl EE, Cheng KC. Mosaic eyes, genomic instability mutants, and cancer susceptibility. Meth Cell Biol 76:555-568, 2004. PMID: 15602892
- Cheng KC, Levenson RL, Robishaw JD. Functional genomic dissection of multimeric protein families in zebrafish. Developmental Dynamics 228:555-567, 2003. PMID: 14579392
- Mohideen M-APK, Beckwith LG, Tsao-Wu GS, Moore JL, Wong ACC, Chinoy MR, Cheng KC. Histology-based screen for zebrafish mutants with abnormal cell differentiation. Developmental Dynamics 228:414-423, 2003. PMID: 14579380
- Gerhard GS, Cheng KC. A call to fins! Zebrafish as a gerontological model. Aging Cell 1:104-111, 2002.
- Gerhard GS, Kaufmann EJ, Wang X, Stewart R, Moore JL, Kasales CJ, Cheng KC. Life spans and senescent phenotypes in an outbred and an inbred strain of zebrafish (Danio rerio). Exp. Gerontology 37:1055-1068, 2002. PMID: 12213556
- Moore JL, Aros M, Steudel KG, Cheng KC. Fixation and decalcification of adult zebrafish for histological, immunocytochemical, and genotypic analysis. Biotechniques 32:296-298, 2002. PMID: 11848405
- Rajarao SJR, Canfield VA, Mohideen M-APK, Postlethwait JH, Cheng KC, Levenson R. The repertoire of Na,K-ATPase a and b subunit genes expressed in the zebrafish, Danio rerio. Genome Research 11:1211-1220, 2001. PMID: 11435403
- Mohideen M-APK, Moore JL, Cheng KC. Centromere-linked microsatellite markers for linkage groups 3, 4, 6, 7, 13 and 20 of zebrafish (Danio rerio). Genomics 67:102-106, 2000. PMID: 10945477
- Beckwith LG, Moore JL, Tsao-Wu GS, Harshbarger JC, Cheng KC. Ethylnitrosourea induces neoplasms in zebrafish (Danio rerio). Lab Invest 80:379-385, 2000 (cover article). PMID: 11956074
- Cheng KC, Beckwith L, Wang X. Update to: Agarose embedded tissue arrays for histological and genetic analysis. In Expression Genetics: High-Throughput Methods, M. McClelland and A. Pardee (eds.), Eaton Publishing, p. 37, 1999.
- Tsao-Wu GS, Weber CH, Budgeon LR, Cheng KC. Agarose embedded tissue arrays for histologic and genetic analysis. In Expression Genetics: High-Throughput Methods, Chapter 4, M. McClelland and A. Pardee (eds.), Eaton Publishing, pp. 31-36, 1999.
- Tsao-Wu GS, Weber CH, Budgeon LR, Cheng KC. Agarose embedded tissue arrays for histologic and genetic analysis. Biotechniques 25:614-618, 1998. PMID: 9793642
- Cheng K. You can’t win the Indy 500 in a Yugo: Help NSF funding: An op-ed. In HMS Beagle: The BioMedNet Magazine, Issue 28, Apr. 17, 1998.
- Cheng KC. A day well-spent for science: a first experience with Scientific Congressional Advocacy. The ASCB Newsletter 21(3), April 1998.
- Cheng KC, Moore JL. Genetic dissection of vertebrate processes in zebrafish: A comparison of uniparental and two-generation screens. Biochemistry and Cell Biology 75:525-533, 1997. PMID: 9551177
- Gestl EE, Kauffman EJ, Moore JL, Cheng KC. New conditions for generation of gynogenetic half-tetrad embryos in the zebrafish, Danio rerio. J Heredity 88:76-79, 1997.
- Cheng KC, Loeb LA. Genomic stability and instability: A working paradigm. In Current Topics in Microbiology and Immunology, Chapter 2, M.B. Kastan (ed.), Springer-Verlag, Berlin, pp. 5-18, 1997. PMID: 8979437
- Hite JM, Eckert KE, Kauffman EJ, Cheng KC. Factors affecting fidelity of DNA synthesis during PCR amplification of d(CA)n d(G-T)n microsatellite repeats. Nucleic Acids Res 24:2429-2434, 1996. PMID: 8710517
- Ham P, Cheng K. Construction of zebrafish spawning cages. The Zebrafish Science Monitor, pp. 5-8, December 18, 1995.
- Kauffman EJ, Gestl EE, Kim DJ, Walker C, Hite JM, Yan G, Rogan PK, Johnson SL, Cheng KC. Microsatellite-centromere mapping in the zebrafish (Danio rerio). Genomics 30:337-341, 1995. PMID: 8586435
- Cheng KC, Loeb LA. Genomic Instability and tumor progression: mechanistic considerations. Advances in Cancer Research 60:121-156, 1993. PMID: 8417498
- Cheng KC, Cahill DS, Kasai, Nishimura S, Loeb LA. 8-Hydroxyguanine, an abundant form of oxidative DNA damage, causes G – T and A – C substitutions. J Biol Chem 267:166-172, 1992. PMID: 1730583 “1112 ISI citations on 4-19-2010”
- Cheng KC, Preston BD, Cahill DS, Dosanjh MK, Singer B, Loeb LA. The vinyl chloride DNA derivative, N2,3-ethenoguanine, causes G to A transitions in E. coli. Proc Natl Acad Sci, USA. 88:9974-9978, 1991. PMID: 1946466
- Cheng KC, Dias M. Genomic Instability and Cancer: Cause and Effect (invited Keystone Meeting review).Cancer Cells 3:188-192, 1991. PMID: 1679993
- Cheng KC, Smith GR. Distribution of Chi-stimulated recombinational exchanges and heteroduplex endpoints in phage lambda. Genetics 123:5-17, 1989. PMID: 2530132
- Cheng KC, Smith GR. Cutting of Chi-like sequences by RecBCD enzyme of Escherichia coli. J Mol Biol 194:747-750, 1987. PMID: 2958631
- Cheng KC, Smith GR. Recombinational hotspot activity of Chi-like sequences. J Mol Biol 180:371-377, 1984. PMID: 6239928