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Items: 26

1.

LINE-1 Mediated Insertion into Poc1a (Protein of Centriole 1 A) Causes Growth Insufficiency and Male Infertility in Mice.

Geister KA, Brinkmeier ML, Cheung LY, Wendt J, Oatley MJ, Burgess DL, Kozloff KM, Cavalcoli JD, Oatley JM, Camper SA.

PLoS Genet. 2015 Oct 23;11(10):e1005569. doi: 10.1371/journal.pgen.1005569. eCollection 2015 Oct.

2.

Genome-Wide Identification of Klebsiella pneumoniae Fitness Genes during Lung Infection.

Bachman MA, Breen P, Deornellas V, Mu Q, Zhao L, Wu W, Cavalcoli JD, Mobley HL.

MBio. 2015 Jun 9;6(3):e00775. doi: 10.1128/mBio.00775-15.

3.

Ecological and genetic interactions between cyanobacteria and viruses in a low-oxygen mat community inferred through metagenomics and metatranscriptomics.

Voorhies AA, Eisenlord SD, Marcus DN, Duhaime MB, Biddanda BA, Cavalcoli JD, Dick GJ.

Environ Microbiol. 2016 Feb;18(2):358-71. doi: 10.1111/1462-2920.12756. Epub 2015 Mar 4.

4.

Complete Genome Sequence of Klebsiella pneumoniae Strain ATCC 43816 KPPR1, a Rifampin-Resistant Mutant Commonly Used in Animal, Genetic, and Molecular Biology Studies.

Broberg CA, Wu W, Cavalcoli JD, Miller VL, Bachman MA.

Genome Announc. 2014 Sep 25;2(5). pii: e00924-14. doi: 10.1128/genomeA.00924-14.

5.

CD1d-unrestricted NKT cells are endowed with a hybrid function far superior than that of iNKT cells.

Farr AR, Wu W, Choi B, Cavalcoli JD, Laouar Y.

Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12841-6. doi: 10.1073/pnas.1323405111. Epub 2014 Aug 20.

6.

Novel bioinformatics method for identification of genome-wide non-canonical spliced regions using RNA-Seq data.

Bai Y, Hassler J, Ziyar A, Li P, Wright Z, Menon R, Omenn GS, Cavalcoli JD, Kaufman RJ, Sartor MA.

PLoS One. 2014 Jul 3;9(7):e100864. doi: 10.1371/journal.pone.0100864. eCollection 2014.

7.

Regulation of the human endogenous retrovirus K (HML-2) transcriptome by the HIV-1 Tat protein.

Gonzalez-Hernandez MJ, Cavalcoli JD, Sartor MA, Contreras-Galindo R, Meng F, Dai M, Dube D, Saha AK, Gitlin SD, Omenn GS, Kaplan MH, Markovitz DM.

J Virol. 2014 Aug;88(16):8924-35. doi: 10.1128/JVI.00556-14. Epub 2014 May 28.

8.

A bioinformatics approach reveals novel interactions of the OVOL transcription factors in the regulation of epithelial - mesenchymal cell reprogramming and cancer progression.

Roca H, Pande M, Huo JS, Hernandez J, Cavalcoli JD, Pienta KJ, McEachin RC.

BMC Syst Biol. 2014 Mar 10;8:29. doi: 10.1186/1752-0509-8-29.

9.

H2A.B facilitates transcription elongation at methylated CpG loci.

Chen Y, Chen Q, McEachin RC, Cavalcoli JD, Yu X.

Genome Res. 2014 Apr;24(4):570-9. doi: 10.1101/gr.156877.113. Epub 2014 Jan 8.

10.

Community transcriptomic assembly reveals microbes that contribute to deep-sea carbon and nitrogen cycling.

Baker BJ, Sheik CS, Taylor CA, Jain S, Bhasi A, Cavalcoli JD, Dick GJ.

ISME J. 2013 Oct;7(10):1962-73. doi: 10.1038/ismej.2013.85. Epub 2013 May 23. Erratum in: ISME J. 2013 Oct;7(10):2060.

11.

Next-generation sequencing identifies the Danforth's short tail mouse mutation as a retrotransposon insertion affecting Ptf1a expression.

Vlangos CN, Siuniak AN, Robinson D, Chinnaiyan AM, Lyons RH Jr, Cavalcoli JD, Keegan CE.

PLoS Genet. 2013;9(2):e1003205. doi: 10.1371/journal.pgen.1003205. Epub 2013 Feb 21.

12.

Identification of cross-species shared transcriptional networks of diabetic nephropathy in human and mouse glomeruli.

Hodgin JB, Nair V, Zhang H, Randolph A, Harris RC, Nelson RG, Weil EJ, Cavalcoli JD, Patel JM, Brosius FC 3rd, Kretzler M.

Diabetes. 2013 Jan;62(1):299-308. doi: 10.2337/db11-1667. Epub 2012 Nov 8.

13.

Disruption of RAB40AL function leads to Martin--Probst syndrome, a rare X-linked multisystem neurodevelopmental human disorder.

Bedoyan JK, Schaibley VM, Peng W, Bai Y, Mondal K, Shetty AC, Durham M, Micucci JA, Dhiraaj A, Skidmore JM, Kaplan JB, Skinner C, Schwartz CE, Antonellis A, Zwick ME, Cavalcoli JD, Li JZ, Martin DM.

J Med Genet. 2012 May;49(5):332-40. doi: 10.1136/jmedgenet-2011-100575.

14.

Convergence of genetic influences in comorbidity.

McEachin RC, Sannareddy KS, Cavalcoli JD, Karnovsky A, Vink JM, Sartor MA.

BMC Bioinformatics. 2012 Mar 13;13 Suppl 2:S8. doi: 10.1186/1471-2105-13-S2-S8.

15.

Decade-long bacterial community dynamics in cystic fibrosis airways.

Zhao J, Schloss PD, Kalikin LM, Carmody LA, Foster BK, Petrosino JF, Cavalcoli JD, VanDevanter DR, Murray S, Li JZ, Young VB, LiPuma JJ.

Proc Natl Acad Sci U S A. 2012 Apr 10;109(15):5809-14. doi: 10.1073/pnas.1120577109. Epub 2012 Mar 26.

16.

The NIH National Center for Integrative Biomedical Informatics (NCIBI).

Athey BD, Cavalcoli JD, Jagadish HV, Omenn GS, Mirel B, Kretzler M, Burant C, Isokpehi RD, DeLisi C; NCIBI faculty, trainees, and staff.

J Am Med Inform Assoc. 2012 Mar-Apr;19(2):166-70. doi: 10.1136/amiajnl-2011-000552. Epub 2011 Nov 19.

17.

A genetic network model of cellular responses to lithium treatment and cocaine abuse in bipolar disorder.

McEachin RC, Chen H, Sartor MA, Saccone SF, Keller BJ, Prossin AR, Cavalcoli JD, McInnis MG.

BMC Syst Biol. 2010 Nov 19;4:158. doi: 10.1186/1752-0509-4-158.

18.

Candidate exome capture identifies mutation of SDCCAG8 as the cause of a retinal-renal ciliopathy.

Otto EA, Hurd TW, Airik R, Chaki M, Zhou W, Stoetzel C, Patil SB, Levy S, Ghosh AK, Murga-Zamalloa CA, van Reeuwijk J, Letteboer SJ, Sang L, Giles RH, Liu Q, Coene KL, Estrada-Cuzcano A, Collin RW, McLaughlin HM, Held S, Kasanuki JM, Ramaswami G, Conte J, Lopez I, Washburn J, Macdonald J, Hu J, Yamashita Y, Maher ER, Guay-Woodford LM, Neumann HP, Obermüller N, Koenekoop RK, Bergmann C, Bei X, Lewis RA, Katsanis N, Lopes V, Williams DS, Lyons RH, Dang CV, Brito DA, Dias MB, Zhang X, Cavalcoli JD, Nürnberg G, Nürnberg P, Pierce EA, Jackson PK, Antignac C, Saunier S, Roepman R, Dollfus H, Khanna H, Hildebrandt F.

Nat Genet. 2010 Oct;42(10):840-50. doi: 10.1038/ng.662. Epub 2010 Sep 12.

19.

Metscape: a Cytoscape plug-in for visualizing and interpreting metabolomic data in the context of human metabolic networks.

Gao J, Tarcea VG, Karnovsky A, Mirel BR, Weymouth TE, Beecher CW, Cavalcoli JD, Athey BD, Omenn GS, Burant CF, Jagadish HV.

Bioinformatics. 2010 Apr 1;26(7):971-3. doi: 10.1093/bioinformatics/btq048. Epub 2010 Feb 7.

20.

Modeling complex genetic and environmental influences on comorbid bipolar disorder with tobacco use disorder.

McEachin RC, Saccone NL, Saccone SF, Kleyman-Smith YD, Kar T, Kare RK, Ade AS, Sartor MA, Cavalcoli JD, McInnis MG.

BMC Med Genet. 2010 Jan 26;11:14. doi: 10.1186/1471-2350-11-14.

21.

Virtual 2-D gel electrophoresis: visualization and analysis of the E. coli proteome by mass spectrometry.

Loo RR, Cavalcoli JD, VanBogelen RA, Mitchell C, Loo JA, Moldover B, Andrews PC.

Anal Chem. 2001 Sep 1;73(17):4063-70.

PMID:
11569793
22.

Genomic and proteomic databases: large-scale analysis and integration of data.

Cavalcoli JD.

Trends Cardiovasc Med. 2001 Feb;11(2):76-81. Review.

PMID:
11530296
23.

Herpes simplex virus type 1 vector-mediated expression of nerve growth factor protects dorsal root ganglion neurons from peroxide toxicity.

Goins WF, Lee KA, Cavalcoli JD, O'Malley ME, DeKosky ST, Fink DJ, Glorioso JC.

J Virol. 1999 Jan;73(1):519-32.

24.

Unique identification of proteins from small genome organisms: theoretical feasibility of high throughput proteome analysis.

Cavalcoli JD, VanBogelen RA, Andrews PC, Moldover B.

Electrophoresis. 1997 Dec;18(15):2703-8.

PMID:
9504801
25.

Engineering herpes simplex virus vectors for human gene therapy.

Glorioso JC, Goins WF, Schmidt MC, Oligino T, Krisky DM, Marconi PC, Cavalcoli JD, Ramakrishnan R, Poliani PL, Fink DJ.

Adv Pharmacol. 1997;40:103-36. Review. No abstract available.

PMID:
9217925

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