2013 Computational Sciences Publications

Q4 - 2013

  1. Won J, Charette JR, Philip VM, Stearns TM, Zhang W, Naggert JK, et al. Genetic modifier loci of mouse Mfrp(rd6) identified by quantitative trait locus analysis. Experimental eye research. 2014;118:30-5. Epub 2013/11/10. doi: 10.1016/j.exer.2013.10.020. PubMed PMID: 24200520; PubMed Central PMCID: PMCPMC4153418.
  2. Sundberg JP, Awgulewitsch A, Pruett ND, Potter CS, Silva KA, Stearns TM, et al. Crisp1 and alopecia areata in C3H/HeJ mice. Experimental and molecular pathology. 2014;97(3):525-8. Epub 2014/12/03. doi: 10.1016/j.yexmp.2014.10.010. PubMed PMID: 25446841; PubMed Central PMCID: PMCPMC4262666.
  3. Philip VM, Tyler AL, Carter GW. Dissection of complex gene expression using the combined analysis of pleiotropy and epistasis. Pacific Symposium on Biocomputing Pacific Symposium on Biocomputing. 2014:200-11. Epub 2013/12/04. PubMed PMID: 24297548; PubMed Central PMCID: PMCPMC3900022.
  4. Tyler AL, Lu W, Hendrick JJ, Philip VM, Carter GW. CAPE: an R package for combined analysis of pleiotropy and epistasis. PLoS computational biology. 2013;9(10):e1003270. Epub 2013/11/10. doi: 10.1371/journal.pcbi.1003270. PubMed PMID: 24204223; PubMed Central PMCID: PMCPMC3808451

Q3 – 2013

  1. Wu D, Austin RS, Zhou S, Brown D, Srivastava A. The root transcriptome for North American ginseng assembled and profiled across seasonal development. BMC genomics. 2013;14:564. Epub 2013/08/21. doi: 10.1186/1471-2164-14-564. PubMed PMID: 23957709; PubMed Central PMCID: PMCPMC3751939
  2. Natarajan S, Li Y, Miller EE, Shih DJ, Taylor MD, Stearns TM, et al. Notch1-induced brain tumor models the sonic hedgehog subgroup of human medulloblastoma. Cancer research. 2013;73(17):5381-90. Epub 2013/07/16. doi: 10.1158/0008-5472.can-13-0033. PubMed PMID: 23852537; PubMed Central PMCID: PMCPMC3766480.
  3. Kuruppumullage Don P, Ananda G, Chiaromonte F, Makova KD. Segmenting the human genome based on states of neutral genetic divergence. Proceedings of the National Academy of Sciences of the United States of America. 2013;110(36):14699-704. Epub 2013/08/21. doi: 10.1073/pnas.1221792110. PubMed PMID: 23959903; PubMed Central PMCID: PMCPMC3767554.

Q2 – 2013

  1. Sundberg JP, Chevallier L, Silva KA, Kennedy VE, Sundberg BA, Li Q, et al. Mouse alopecia areata and heart disease: know your mouse! The Journal of investigative dermatology. 2014;134(1):279-81. Epub 2013/06/19. doi: 10.1038/jid.2013.273. PubMed PMID: 23774530; PubMed Central PMCID: PMCPMC3825791.
  2. Srivastava A, Philip VM, Greenstein I, Rowe LB, Barter M, Lutz C, et al. Discovery of transgene insertion sites by high throughput sequencing of mate pair libraries. BMC genomics. 2014;15:367. Epub 2014/06/03. doi: 10.1186/1471-2164-15-367. PubMed PMID: 24884803; PubMed Central PMCID: PMCPMC4035081.
  3. Lee ST, Feng M, Wei Y, Li Z, Qiao Y, Guan P, Murthy Karuturi, et al. Protein tyrosine phosphatase UBASH3B is overexpressed in triple-negative breast cancer and promotes invasion and metastasis. Proceedings of the National Academy of Sciences of the United States of America. 2013;110(27):11121-6. Epub 2013/06/21. doi: 10.1073/pnas.1300873110. PubMed PMID: 23784775; PubMed Central PMCID: PMCPMC3704014.

Q1 – 2013

  1. Sproule TJ, Bubier JA, Grandi FC, Sun VZ, Philip VM, McPhee CG, et al. Molecular identification of collagen 17a1 as a major genetic modifier of laminin gamma 2 mutation-induced junctional epidermolysis bullosa in mice. PLoS genetics. 2014;10(2):e1004068. Epub 2014/02/20. doi: 10.1371/journal.pgen.1004068. PubMed PMID: 24550734; PubMed Central PMCID: PMCPMC3923665.
  2. Rouam S, Miller LD, Karuturi RK. Identifying driver genes in cancer by triangulating gene expression, gene location, and survival data. Cancer informatics. 2014;13(Suppl 6):35-48. Epub 2014/01/01. doi: 10.4137/cin.s18302. PubMed PMID: 25949096; PubMed Central PMCID: PMCPMC4354331.
  3. Potter CS, Wang Z, Silva KA, Kennedy VE, Stearns TM, Burzenski L, et al. Chronic proliferative dermatitis in Sharpin null mice: development of an autoinflammatory disease in the absence of B and T lymphocytes and IL4/IL13 signaling. PloS one. 2014;9(1):e85666. Epub 2014/01/28. doi: 10.1371/journal.pone.0085666. PubMed PMID: 24465642; PubMed Central PMCID: PMCPMC3897490.
  4. Dowell KG, Simons AK, Wang ZZ, Yun K, Hibbs MA. Cell-type-specific predictive network yields novel insights into mouse embryonic stem cell self-renewal and cell fate. PloS one. 2013;8(2):e56810. Epub 2013/03/08. doi: 10.1371/journal.pone.0056810. PubMed PMID: 23468881; PubMed Central PMCID: PMCPMC3585227.
  5. Logan RW, Robledo RF, Recla JM, Philip VM, Bubier JA, Jay JJ, et al. High-precision genetic mapping of behavioral traits in the diversity outbred mouse population. Genes, brain, and behavior. 2013;12(4):424-37. Epub 2013/02/26. doi: 10.1111/gbb.12029. PubMed PMID: 23433259; PubMed Central PMCID: PMCPMC3709837.
  6. Himes BE, Sheppard K, Berndt A, Leme AS, Myers RA, Gignoux CR, et al. Integration of mouse and human genome-wide association data identifies KCNIP4 as an asthma gene. PloS one. 2013;8(2):e56179. Epub 2013/03/05. doi: 10.1371/journal.pone.0056179. PubMed PMID: 23457522; PubMed Central PMCID: PMCPMC3572953.