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Items: 47

1.

Network assessment of demethylation treatment in melanoma: Differential transcriptome-methylome and antigen profile signatures.

Jiang Z, Cinti C, Taranta M, Mattioli E, Schena E, Singh S, Khurana R, Lattanzi G, Tsinoremas NF, Capobianco E.

PLoS One. 2018 Nov 28;13(11):e0206686. doi: 10.1371/journal.pone.0206686. eCollection 2018.

2.

Simulated Microgravity Impairs Cardiac Autonomic Neurogenesis from Neural Crest Cells.

Hatzistergos KE, Jiang Z, Valasaki K, Takeuchi LM, Balkan W, Atluri P, Saur D, Seidler B, Tsinoremas N, DiFede DL, Hare JM.

Stem Cells Dev. 2018 Jun 15;27(12):819-830. doi: 10.1089/scd.2017.0265. Epub 2018 Mar 20.

3.

Ensemble Modeling Approach Targeting Heterogeneous RNA-Seq data: Application to Melanoma Pseudogenes.

Capobianco E, Valdes C, Sarti S, Jiang Z, Poliseno L, Tsinoremas NF.

Sci Rep. 2017 Dec 11;7(1):17344. doi: 10.1038/s41598-017-17337-7.

4.

Induction of endogenous retroelements as a potential mechanism for mouse-specific drug-induced carcinogenicity.

Coskran TM, Jiang Z, Klaunig JE, Mager DL, Obert L, Robertson A, Tsinoremas N, Wang Z, Gosink M.

PLoS One. 2017 May 4;12(5):e0176768. doi: 10.1371/journal.pone.0176768. eCollection 2017.

5.

The landscape of BRAF transcript and protein variants in human cancer.

Marranci A, Jiang Z, Vitiello M, Guzzolino E, Comelli L, Sarti S, Lubrano S, Franchin C, Echevarría-Vargas I, Tuccoli A, Mercatanti A, Evangelista M, Sportoletti P, Cozza G, Luzi E, Capobianco E, Villanueva J, Arrigoni G, Signore G, Rocchiccioli S, Pitto L, Tsinoremas N, Poliseno L.

Mol Cancer. 2017 Apr 28;16(1):85. doi: 10.1186/s12943-017-0645-4.

6.
7.

Non-coding RNAs profiling in head and neck cancers.

Salyakina D, Tsinoremas NF.

NPJ Genom Med. 2016 Jan 13;1:15004. doi: 10.1038/npjgenmed.2015.4. eCollection 2016.

8.

Identification of BRAF 3'UTR Isoforms in Melanoma.

Marranci A, Tuccoli A, Vitiello M, Mercoledi E, Sarti S, Lubrano S, Evangelista M, Fogli A, Valdes C, Russo F, Monte MD, Caligo MA, Pellegrini M, Capobianco E, Tsinoremas N, Poliseno L.

J Invest Dermatol. 2015 Jun;135(6):1694-1697. doi: 10.1038/jid.2015.47. Epub 2015 Feb 16. No abstract available.

9.

Integrative analysis of cancer imaging readouts by networks.

Dominietto M, Tsinoremas N, Capobianco E.

Mol Oncol. 2015 Jan;9(1):1-16. doi: 10.1016/j.molonc.2014.08.013. Epub 2014 Sep 10. Review.

10.

Identification of potential therapeutic targets in a model of neuropathic pain.

Raju HB, Englander Z, Capobianco E, Tsinoremas NF, Lerch JK.

Front Genet. 2014 May 23;5:131. doi: 10.3389/fgene.2014.00131. eCollection 2014.

11.

Comparative analysis of genome sequences from four strains of the Buchnera aphidicola Mp endosymbion of the green peach aphid, Myzus persicae.

Jiang Z, Jones DH, Khuri S, Tsinoremas NF, Wyss T, Jander G, Wilson AC.

BMC Genomics. 2013 Dec 24;14:917. doi: 10.1186/1471-2164-14-917.

12.

Viral expression associated with gastrointestinal adenocarcinomas in TCGA high-throughput sequencing data.

Salyakina D, Tsinoremas NF.

Hum Genomics. 2013 Nov 27;7:23. doi: 10.1186/1479-7364-7-23.

13.

MicroRNA-20a constrains p300-driven myocardial angiogenic transcription by direct targeting of p300.

Shehadeh LA, Sharma S, Pessanha M, Wei JQ, Liu J, Yuan H, Rodrigues CO, Scherr M, Tsinoremas NF, Bishopric NH.

PLoS One. 2013 Nov 13;8(11):e79133. doi: 10.1371/journal.pone.0079133. eCollection 2013.

14.

Characteristics of cross-hybridization and cross-alignment of expression in pseudo-xenograft samples by RNA-Seq and microarrays.

Valdes C, Seo P, Tsinoremas N, Clarke J.

J Clin Bioinforma. 2013 Apr 18;3(1):8. doi: 10.1186/2043-9113-3-8.

15.

MicroRNA expression in alpha and beta cells of human pancreatic islets.

Klein D, Misawa R, Bravo-Egana V, Vargas N, Rosero S, Piroso J, Ichii H, Umland O, Zhijie J, Tsinoremas N, Ricordi C, Inverardi L, Domínguez-Bendala J, Pastori RL.

PLoS One. 2013;8(1):e55064. doi: 10.1371/journal.pone.0055064. Epub 2013 Jan 29.

16.

A clinical evaluation tool for SNP arrays, especially for autosomal recessive conditions in offspring of consanguineous parents.

Wierenga KJ, Jiang Z, Yang AC, Mulvihill JJ, Tsinoremas NF.

Genet Med. 2013 May;15(5):354-60. doi: 10.1038/gim.2012.136. Epub 2012 Oct 25.

17.

Role of plasminogen activator inhibitor-1 in urokinase's paradoxical in vivo tumor suppressing or promoting effects.

Jing Y, Kovacs K, Kurisetty V, Jiang Z, Tsinoremas N, Merchan JR.

Mol Cancer Res. 2012 Oct;10(10):1271-81. doi: 10.1158/1541-7786.MCR-12-0145. Epub 2012 Aug 21.

18.

Inflammation-Mediated Regulation of MicroRNA Expression in Transplanted Pancreatic Islets.

Bravo-Egana V, Rosero S, Klein D, Jiang Z, Vargas N, Tsinoremas N, Doni M, Podetta M, Ricordi C, Molano RD, Pileggi A, Pastori RL.

J Transplant. 2012;2012:723614. doi: 10.1155/2012/723614. Epub 2012 May 10.

19.

GenSensor Suite: A Web-Based Tool for the Analysis of Gene and Protein Interactions, Pathways, and Regulation.

Gosink M, Khuri S, Valdes C, Jiang Z, Tsinoremas NF.

Adv Bioinformatics. 2011;2011:271563. doi: 10.1155/2011/271563. Epub 2011 Dec 13.

20.

Peripheral blood gene expression analysis in intestinal transplantation: a feasibility study for detecting novel candidate biomarkers of graft rejection.

Andreev VP, Tryphonopoulos P, Blomberg BB, Tsinoremas N, Weppler D, Neuman DR, Volsky A, Nishida S, Tekin A, Selvaggi G, Levi DM, Tzakis AG, Ruiz P.

Transplantation. 2011 Dec 27;92(12):1385-91. doi: 10.1097/TP.0b013e3182370db1.

PMID:
22183870
21.

Heterogeneity in SDF-1 expression defines the vasculogenic potential of adult cardiac progenitor cells.

Rodrigues CO, Shehadeh LA, Hoosien M, Otero V, Chopra I, Tsinoremas NF, Bishopric NH.

PLoS One. 2011;6(8):e24013. doi: 10.1371/journal.pone.0024013. Epub 2011 Aug 24.

22.

Identifying consensus disease pathways in Parkinson's disease using an integrative systems biology approach.

Edwards YJ, Beecham GW, Scott WK, Khuri S, Bademci G, Tekin D, Martin ER, Jiang Z, Mash DC, ffrench-Mullen J, Pericak-Vance MA, Tsinoremas N, Vance JM.

PLoS One. 2011 Feb 22;6(2):e16917. doi: 10.1371/journal.pone.0016917.

23.

MicroRNA signature of the human developing pancreas.

Rosero S, Bravo-Egana V, Jiang Z, Khuri S, Tsinoremas N, Klein D, Sabates E, Correa-Medina M, Ricordi C, Domínguez-Bendala J, Diez J, Pastori RL.

BMC Genomics. 2010 Sep 22;11:509. doi: 10.1186/1471-2164-11-509.

24.

Glucocorticoid receptor polymorphisms and intraocular pressure response to intravitreal triamcinolone acetonide.

Gerzenstein SM, Pletcher MT, Cervino AC, Tsinoremas NF, Young B, Puliafito CA, Fini ME, Schwartz SG.

Ophthalmic Genet. 2008 Dec;29(4):166-70. doi: 10.1080/13816810802320217.

PMID:
19005987
25.

Comparison of miniaturized time-resolved fluorescence resonance energy transfer and enzyme-coupled luciferase high-throughput screening assays to discover inhibitors of Rho-kinase II (ROCK-II).

Schröter T, Minond D, Weiser A, Dao C, Habel J, Spicer T, Chase P, Baillargeon P, Scampavia L, Schürer S, Chung C, Mader C, Southern M, Tsinoremas N, LoGrasso P, Hodder P.

J Biomol Screen. 2008 Jan;13(1):17-28. doi: 10.1177/1087057107310806.

PMID:
18227223
26.

Electronically subtracting expression patterns from a mixed cell population.

Gosink MM, Petrie HT, Tsinoremas NF.

Bioinformatics. 2007 Dec 15;23(24):3328-34. Epub 2007 Oct 22.

PMID:
17956877
27.

A genome-wide study of lupus: preliminary analysis and data release.

Cervino AC, Tsinoremas NF, Hoffman RW.

Ann N Y Acad Sci. 2007 Sep;1110:131-9.

PMID:
17911428
29.

The Deuterator: software for the determination of backbone amide deuterium levels from H/D exchange MS data.

Pascal BD, Chalmers MJ, Busby SA, Mader CC, Southern MR, Tsinoremas NF, Griffin PR.

BMC Bioinformatics. 2007 May 16;8:156.

30.

An integrated in silico gene mapping strategy in inbred mice.

Cervino AC, Darvasi A, Fallahi M, Mader CC, Tsinoremas NF.

Genetics. 2007 Jan;175(1):321-33. Epub 2006 Oct 8.

31.

A comprehensive mouse IBD database for the efficient localization of quantitative trait loci.

Cervino AC, Gosink M, Fallahi M, Pascal B, Mader C, Tsinoremas NF.

Mamm Genome. 2006 Jun;17(6):565-74. Epub 2006 Jun 12.

PMID:
16783638
32.

A comprehensive transcript index of the human genome generated using microarrays and computational approaches.

Schadt EE, Edwards SW, GuhaThakurta D, Holder D, Ying L, Svetnik V, Leonardson A, Hart KW, Russell A, Li G, Cavet G, Castle J, McDonagh P, Kan Z, Chen R, Kasarskis A, Margarint M, Caceres RM, Johnson JM, Armour CD, Garrett-Engele PW, Tsinoremas NF, Shoemaker DD.

Genome Biol. 2004;5(10):R73. Epub 2004 Sep 23.

33.

Expression of alternatively spliced sodium channel alpha-subunit genes. Unique splicing patterns are observed in dorsal root ganglia.

Raymond CK, Castle J, Garrett-Engele P, Armour CD, Kan Z, Tsinoremas N, Johnson JM.

J Biol Chem. 2004 Oct 29;279(44):46234-41. Epub 2004 Aug 9.

34.

Detection of novel splice forms in human and mouse using cross-species approach.

Kan Z, Castle J, Johnson JM, Tsinoremas NF.

Pac Symp Biocomput. 2004:42-53.

35.

Application of bioluminescence to the study of circadian rhythms in cyanobacteria.

Andersson CR, Tsinoremas NF, Shelton J, Lebedeva NV, Yarrow J, Min H, Golden SS.

Methods Enzymol. 2000;305:527-42. No abstract available.

PMID:
10812624
37.
38.

cpmA, a gene involved in an output pathway of the cyanobacterial circadian system.

Katayama M, Tsinoremas NF, Kondo T, Golden SS.

J Bacteriol. 1999 Jun;181(11):3516-24.

40.

Circadian expression of genes involved in the purine biosynthetic pathway of the cyanobacterium Synechococcus sp. strain PCC 7942.

Liu Y, Tsinoremas NF, Golden SS, Kondo T, Johnson CH.

Mol Microbiol. 1996 Jun;20(5):1071-81.

PMID:
8809759
41.

A sigma factor that modifies the circadian expression of a subset of genes in cyanobacteria.

Tsinoremas NF, Ishiura M, Kondo T, Andersson CR, Tanaka K, Takahashi H, Johnson CH, Golden SS.

EMBO J. 1996 May 15;15(10):2488-95.

42.

Circadian orchestration of gene expression in cyanobacteria.

Liu Y, Tsinoremas NF, Johnson CH, Lebedeva NV, Golden SS, Ishiura M, Kondo T.

Genes Dev. 1995 Jun 15;9(12):1469-78.

43.

Circadian clock mutants of cyanobacteria.

Kondo T, Tsinoremas NF, Golden SS, Johnson CH, Kutsuna S, Ishiura M.

Science. 1994 Nov 18;266(5188):1233-6.

PMID:
7973706
44.
45.

Blue and red light reversibly control psbA expression in the cyanobacterium Synechococcus sp. strain PCC 7942.

Tsinoremas NF, Schaefer MR, Golden SS.

J Biol Chem. 1994 Jun 10;269(23):16143-7.

46.

Photosynthetic electron transport controls nitrogen assimilation in cyanobacteria by means of posttranslational modification of the glnB gene product.

Tsinoremas NF, Castets AM, Harrison MA, Allen JF, Tandeau de Marsac N.

Proc Natl Acad Sci U S A. 1991 Jun 1;88(11):4565-9.

47.

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