ZFIN Person: Cheng, Keith C.

ZFIN ID: ZDB-PERS-960805-673

ZFIN ID: ZDB-PERS-960805-673

Cheng, Keith C.

Email:	kcheng@psu.edu
URL:	http://profiles.psu.edu/profiles/display/113446
Affiliation:	Cheng Lab
Address:	The Jake Gittlen Cancer Research Institute Hershey Medical Center Pennsylvania State University College of Medicine 500 University Drive Hershey, PA 17033 USA
Country:	United States
Phone:	Office: (717) 531-5635, Lab: (717) 531-4704
Fax:	(717) 531-5634
ORCID ID:

BIOGRAPHY AND RESEARCH INTERESTS

Genomic instability, cellular differentiation, cancer, zebrafish functional genomics, anatomic atlas, and virtual microscopy.

PUBLICATIONS

Katz, S.R., Yakovlev, M.A., Vanselow, D.J., Ding, Y., Lin, A.Y., Parkinson, D.Y., Wang, Y., Canfield, V.A., Ang, K.C., Cheng, K.C. (2021) Whole-organism 3D quantitative characterization of zebrafish melanin by silver deposition micro-CT. eLIFE. 10:

Yang, H., Luan, Y., Liu, T., Lee, H.J., Fang, L., Wang, Y., Wang, X., Zhang, B., Jin, Q., Ang, K.C., Xing, X., Wang, J., Xu, J., Song, F., Sriranga, I., Khunsriraksakul, C., Salameh, T., Li, D., Choudhary, M.N.K., Topczewski, J., Wang, K., Gerhard, G.S., Hardison, R.C., Wang, T., Cheng, K.C., Yue, F. (2020) A map of cis-regulatory elements and 3D genome structures in zebrafish. Nature. 588(7837):337-343

Van Nuffel, S., Ang, K.C., Lin, A.Y., Cheng, K.C. (2020) Chemical Imaging of Retinal Pigment Epithelium in Frozen Sections of Zebrafish Larvae Using ToF-SIMS. Journal of the American Society for Mass Spectrometry. 32(1):255-261

Ding, Y., Vanselow, D.J., Yakovlev, M.A., Katz, S.R., Lin, A.Y., Clark, D.P., Vargas, P., Xin, X., Copper, J.E., Canfield, V.A., Ang, K.C., Wang, Y., Xiao, X., De Carlo, F., van Rossum, D.B., La Riviere, P., Cheng, K. (2019) Computational 3D histological phenotyping of whole zebrafish by X-ray histotomography. eLIFE. 8:

Lin, A.Y., Ding, Y., Vanselow, D.J., Katz, S.R., Yakovlev, M.A., Clark, D.P., Mandrell, D., Copper, J.E., van Rossum, D.B., Cheng, K.C. (2018) Rigid Embedding of Fixed and Stained, Whole, Millimeter-Scale Specimens for Section-free 3D Histology by Micro-Computed Tomography. Journal of visualized experiments : JoVE. (140)

Copper, J.E., Budgeon, L.R., Foutz, C.A., van Rossum, D.B., Vanselow, D.J., Hubley, M.J., Clark, D.P., Mandrell, D.T., Cheng, K.C. (2017) Comparative analysis of fixation and embedding techniques for optimized histological preparation of zebrafish. Comparative biochemistry and physiology. Toxicology & pharmacology : CBP. 208:38-46

Xin, X., Clark, D., Ang, K.C., van Rossum, D.B., Copper, J., Xiao, X., La Riviere, P.J., Cheng, K.C. (2017) Synchrotron microCT imaging of soft tissue in juvenile zebrafish reveals retinotectal projections. Proceedings of SPIE--the International Society for Optical Engineering. 10060:

Ding, Y., Tavolara, T., Cheng, K. (2016) Automated Detection of Retinal Cell Nuclei in 3D Micro-CT Images of Zebrafish using Support Vector Machine Classification. Proceedings of SPIE--the International Society for Optical Engineering. 9791:

Cheng, K.C., Katz, S.R., Lin, A.Y., Xin, X., Ding, Y. (2016) Whole-Organism Cellular Pathology: A Systems Approach to Phenomics. Advances in genetics. 95:89-115

Tsetskhladze, Z.R., Canfield, V.A., Ang, K.C., Wentzel, S.M., Reid, K.P., Berg, A.S., Johnson, S.L., Kawakami, K., and Cheng, K.C. (2012) Functional assessment of human coding mutations affecting skin pigmentation using zebrafish. PLoS One. 7(10):e47398

Cheng, K.C., Xin, X., Clark, D.P., and La Riviere, P. (2011) Whole-animal imaging, gene function, and the Zebrafish Phenome Project. Current opinion in genetics & development. 21(5):620-9

Canada, B.A., Thomas, G.K., Cheng, K.C., and Wang, J.Z. (2011) SHIRAZ: an automated histology image annotation system for zebrafish phenomics. Multimedia Tools and Applications. 51(2):401-440

Ekker, S.C., Parichy, D.M., and Cheng, K.C. (2008) Research implications of pigment biology in zebrafish. Zebrafish. 5(4):233-235

Aleström, P., Begemann, G., Carvan, M.J. 3rd, Cheng, K.C., Crosier, K., Crosier, P., Ekker, S., Huttenlocher, A., Kawakami, K., Kelly, G., Korzh, V., Lieschke, G., Mione, M., Neely, M.N., Neuhauss, S., and Trede, N.S. (2008) Views on four key questions about zebrafish research. Zebrafish. 5(1):9-24

Moore, J.L., Rush, L.M., Breneman, C., Mohideen, M.A., and Cheng, K.C. (2006) Zebrafish Genomic Instability Mutants and Cancer Susceptibility. Genetics. 174(2):585-600

Sabaliauskas, N.A., Foutz, C.A., Mest, J.R., Budgeon, L.R., Sidor, AT, Gershenson, J.A., Joshi, S.B., and Cheng, K.C. (2006) High-throughput zebrafish histology. Methods (San Diego, Calif.). 39(3):246-254

Blasiole, B., Canfield, V.A., Vollrath, M.A., Huss, D., Mohideen, M.A., Dickman, J.D., Cheng, K.C., Fekete, D.M., and Levenson, R. (2006) Separate Na,K-ATPase genes are required for otolith formation and semicircular canal development in zebrafish. Developmental Biology. 294(1):148-160

Canada, B.A., Cheng, K.C., and Wang, J.Z. (2006) QCHARM: A Novel Computational and Scientific Visualization Framework for Facilitating Discovery and Improving Diagnostic Reliability in Medicine. AMIA Annual Symposium proceedings. :870

Lamason, R.L., Mohideen, M.A., Mest, J.R., Wong, A.C., Norton, H.L., Aros, M.C., Jurynec, M.J., Mao, X., Humphreville, V.R., Humbert, J.E., Sinha, S., Moore, J.L., Jagadeeswaran, P., Zhao, W., Ning, G., Makalowska, I., McKeigue, P.M., O'donnell, D., Kittles, R., Parra, E.J., Mangini, N.J., Grunwald, D.J., Shriver, M.D., Canfield, V.A., and Cheng, K.C. (2005) SLC24A5, a putative cation exchanger, affects pigmentation in zebrafish and humans. Science (New York, N.Y.). 310(5755):1782-1786

Croushore, J.A., Blasiole, B., Riddle, R.C., Thisse, C., Thisse, B., Canfield, V.A., Robertson, G.P., Cheng, K.C., and Levenson, R. (2005) Ptena and ptenb genes play distinct roles in zebrafish embryogenesis. Developmental Dynamics : an official publication of the American Association of Anatomists. 234(4):911-921

Duffy, K.T., McAleer, M.F., Davidson, W.R., Kari, L., Kari, C., Liu, C.G., Farber, S.A., Cheng, K.C., Mest, J.R., Wickstrom, E., Dicker, A.P., and Rodeck, U. (2005) Coordinate control of cell cycle regulatory genes in zebrafish development tested by cyclin D1 knockdown with morpholino phosphorodiamidates and hydroxyprolyl-phosphono peptide nucleic acids. Nucleic acids research. 33(15):4914-4921

Gerhard, G.S., Malek, R.L., Keller, E., Murtha, J., and Cheng, K.C. (2004) Zebrafish, Killifish, Neither Fish, Both Fish?. The journals of gerontology. Series A, Biological sciences and medical sciences. 59(9):B873-B875

Moore, J.L., Gestl, E.E., and Cheng, K.C.. (2004) Mosaic eyes, genomic instability mutants, and cancer susceptibility. The Zebrafish: Cellular and Developmental Biology,2nd Ed. Methods Cell Biol.. 76:555-568

Mohideen, M.A., Beckwith, L.G., Tsao-Wu, G.S., Moore, J.L., Wong, A.C., Chinoy, M.R., and Cheng, K.C. (2003) Histology-based screen for zebrafish mutants with abnormal cell differentiation. Developmental Dynamics : an official publication of the American Association of Anatomists. 228(3):414-423

Cheng, K.C., Levenson, R., and Robishaw, J.D. (2003) Functional genomic dissection of multimeric protein families in zebrafish. Developmental Dynamics : an official publication of the American Association of Anatomists. 228(3):555-567

Gerhard, G.S. and Cheng, K.C. (2002) A call to fins! Zebrafish as a gerontological model. Aging Cell. 1(2):104-111

Gerhard, G., Kauffman, E., Wang, X., Stewart, R., Moore, J., Kasales, C., Demidenko, E., and Cheng, K. (2002) Life spans and senescent phenotypes in two strains of zebrafish (Danio rerio). Experimental gerontology. 37(8-9):1055-1068

Clarke, L.E., Cheng, K., Beckwith, L.G., Moore, J.L., Wang, X., and Boyer, P.J. (2002) Expression in adult zebrafish of antigens detected by immunomarkers commonly used in diagnostic pathology laboratories: Prelude to evaluation of spontaneously arising and induced neoplasms. Journal of neuropathology and experimental neurology. 61(5):112

Moore, J.L., Aros, M., Steudel, K.G., and Cheng, K.C. (2002) Fixation and decalcification of adult zebrafish for histological, immunocytochemical, and genotypic analysis. Biotechniques. 32(2):296-298

Rajarao, S.J., Canfield, V.A., Mohideen, M.A., Yan, Y.-L., Postlethwait, J.H., Cheng, K.C., and Levenson, R. (2001) The repertoire of Na,K-ATPase alpha and beta subunit genes expressed in the zebrafish, Danio rerio. Genome research. 11(7):1211-1220

Mohideen, M.A.P.K., Moore, J.L., and Cheng, K.C. (2000) Centromere-linked microsatellite markers for linkage groups 3, 4, 6, 7, 13, and 20 of zebrafish (Danio rerio). Genomics. 67(1):102-106

Beckwith, L.G., Moore, J.L., Tsao-Wu, G.S., Harshbarger, J.C., and Cheng, K.C. (2000) Ethylnitrosourea induces neoplasia in zebrafish (Danio rerio). Laboratory investigation; a journal of technical methods and pathology. 80(3):379-385

Tsao-Wu, G.S., Weber, C.H., Budgeon, L.R., and Cheng, K.C. (1998) Agarose-embedded tissue arrays for histologic and genetic analysis. Biotechniques. 25:614-618

Gestl, E.E., Kauffman, E.J., Moore, J.L., and Cheng, K.C. (1997) New conditions for generation of gynogenetic half-tetrad embryos in the zebrafish (Danio rerio). The Journal of heredity. 88(1):76-79

Cheng, K.C. and Moore, J.L. (1997) Genetic dissection of vertebrate processes in zebrafish: A comparison of uniparental and two-generation screens. Biochemistry and cell biology = Biochimie et biologie cellulaire. 75:525-533

Kauffman, E.J., Gestl, E.E., Kim, D.J., Walker, C., Hite, J.M., Yan, G., Rogan, P.K., Johnson, S.L., and Cheng, K.C. (1995) Microsatellite-centromere mapping in the zebrafish (Danio rerio). Genomics. 30:337-341

Ham, P.H. and Cheng, K.C. (1995) Construction of zebrafish spawning cages. Zebrafish Science Monitor. 3:5

Gestl, E.E. and Cheng, K.C. (1995) A small zebrafish genetics facility. Zebrafish Science Monitor. 3:6-8

Cheng, K.C., E.J. Kauffman, and E. Gestl (1993) Tidbits (nibbles) on raising zebrafish babies. Zebrafish Science Monitor. 2:3,6

NON-ZEBRAFISH PUBLICATIONS
Cheng, K.C. and Smith, G.R. (1984) Recombinational hotspot activity of Chi-like sequences. J. Mol. Biol. 180:371-377.

Smith, G.R., Amundsen, S.K., Chaudhury, A.M., Cheng, K.C., Ponticelli, A.S., Roberts, C.M., Schultz, D.W. and Taylor, A.F. (1984) Roles of RecBC enzyme and Chi sites in homologous recombination. Cold Spring Harbor Symp. Quant. Biol. 49:485-495.

Smith, G.R., Amundsen, S.K., Cheng, K.C., McKittrick, N.H., Ponticelli, A.S., Roberts, C.M., Schultz, D.W. , Taylor, A.F. and Thibodeaux, S. (1987) Mechanism and control of homologous recombination. In Mechanisms of DNA replication and recombination. UCLA Symposium on Molecular and Cellular Biology New Series, Volume 47. Alan R. Liss, Inc. New York, New York, pages 567-583.

Cheng, K.C. and Smith G.R. (1987) Cutting of Chi-like sequences by RecBCD enzyme. J. Mol. Biol. 194:747-750.

Cheng, K.C. and Smith, G.R. (1989) Distribution of Chi-stimulated recombinational exchanges and heteroduplex endpoints in phage lambda. Genetics 123:5-17.

Loeb, L.A. and Cheng, K.C. (1990) Errors in DNA synthesis: A source of spontaneous mutations. Mutat. Res. 238:297-304.

Cheng, K.C. and Dias, M. (1991) Genomic Instability and Cancer: Cause and Effect (invited Keystone Meeting review) Cancer Cells 3:188-192.

Loeb, L.A., McBride, T.J ., Reid, T.M. and Cheng, K.C. (1991) Mutagenic spectra of oxygen free radicals. In New Horizons in Molecular Toxicology, pp. 35-39, eds., G.S. Probst, J.J. Vodicnik and M.A. Dorato, published for Lilly Research Laboratories by FASEB, 1991.

Cheng, K.C., Cahill, D.S., Preston, B.D., Singer, B. and Loeb, L.A. (1991) The vinyl chloride DNA derivative, N2,3-ethenoguanine, causes G to A transitions in E. coli. Proc. Natl. Acad. Sci., U.S.A. 88:9974-9978.

Cheng, K.C., Cahill, D.S., Kasai, Nishimura, S. and Loeb, L.A. (1992) 8-Hydroxyguanine, an abundant form of oxidative DNA damage, causes G to T and A to C substitutions. J. Biol. Chem. 267:166-172.

Cheng, K.C. and Loeb, L.A. (1993) Genomic Instability and tumor progression: mechanistic considerations. Advances in Cancer Research 60:121-156.

Cheng, K.C. and Loeb, L.A. (1996) Genomic stability and instability: A working paradigm. Chapter 2, Current Topics in Microbiology and Immunology, (ed. M.B. Kastan) Springer-Verlag, Berlin, pp. 5-18.

Hite, J.M., Eckert, K.E., Kauffman, E.J., and Cheng, K.C. (1996) 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.

Cheng, K.C. (1998) "A Day Well Spent for Science: a First Experience with Scientific Congressional Advocacy", The ASCB Newsletter, Vol. 21, No. 3 (April 1998).

Cheng, K. (1998) You can't win the Indy 500 in a Yugo: Help NSF funding: An oped. In HMS Beagle: The BioMedNet Magazine (http://biomednet.com/hmsbeagle/1998/28/people/op_ed.htm) Issue 28 (Apr. 17)