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Items: 1 to 20 of 131

1.

Soluble syntaxin 3 functions as a transcriptional regulator.

Giovannone AJ, Winterstein C, Bhattaram P, Reales E, Low SH, Baggs JE, Xu M, Lalli MA, Hogenesch JB, Weimbs T.

J Biol Chem. 2018 Apr 13;293(15):5478-5491. doi: 10.1074/jbc.RA117.000874. Epub 2018 Feb 23.

PMID:
29475951
2.

Guidelines for Genome-Scale Analysis of Biological Rhythms.

Hughes ME, Abruzzi KC, Allada R, Anafi R, Arpat AB, Asher G, Baldi P, de Bekker C, Bell-Pedersen D, Blau J, Brown S, Ceriani MF, Chen Z, Chiu JC, Cox J, Crowell AM, DeBruyne JP, Dijk DJ, DiTacchio L, Doyle FJ, Duffield GE, Dunlap JC, Eckel-Mahan K, Esser KA, FitzGerald GA, Forger DB, Francey LJ, Fu YH, Gachon F, Gatfield D, de Goede P, Golden SS, Green C, Harer J, Harmer S, Haspel J, Hastings MH, Herzel H, Herzog ED, Hoffmann C, Hong C, Hughey JJ, Hurley JM, de la Iglesia HO, Johnson C, Kay SA, Koike N, Kornacker K, Kramer A, Lamia K, Leise T, Lewis SA, Li J, Li X, Liu AC, Loros JJ, Martino TA, Menet JS, Merrow M, Millar AJ, Mockler T, Naef F, Nagoshi E, Nitabach MN, Olmedo M, Nusinow DA, Ptáček LJ, Rand D, Reddy AB, Robles MS, Roenneberg T, Rosbash M, Ruben MD, Rund SSC, Sancar A, Sassone-Corsi P, Sehgal A, Sherrill-Mix S, Skene DJ, Storch KF, Takahashi JS, Ueda HR, Wang H, Weitz C, Westermark PO, Wijnen H, Xu Y, Wu G, Yoo SH, Young M, Zhang EE, Zielinski T, Hogenesch JB.

J Biol Rhythms. 2017 Oct;32(5):380-393. doi: 10.1177/0748730417728663. Epub 2017 Nov 3.

3.

Experimental and statistical reevaluation provides no evidence for Drosophila courtship song rhythms.

Stern DL, Clemens J, Coen P, Calhoun AJ, Hogenesch JB, Arthur BJ, Murthy M.

Proc Natl Acad Sci U S A. 2017 Sep 12;114(37):9978-9983. doi: 10.1073/pnas.1707471114. Epub 2017 Aug 29.

4.

It's not all in the brain.

Francey LJ, Hogenesch JB.

Elife. 2017 Aug 29;6. pii: e30561. doi: 10.7554/eLife.30561.

5.

Circadian Rhythms: Move Over Neurons - Astrocytes Mediate SCN Clock Function.

Ruben MD, Hogenesch JB.

Curr Biol. 2017 May 8;27(9):R350-R352. doi: 10.1016/j.cub.2017.03.055.

PMID:
28486120
6.

Clock Regulation of Metabolites Reveals Coupling between Transcription and Metabolism.

Krishnaiah SY, Wu G, Altman BJ, Growe J, Rhoades SD, Coldren F, Venkataraman A, Olarerin-George AO, Francey LJ, Mukherjee S, Girish S, Selby CP, Cal S, Er U, Sianati B, Sengupta A, Anafi RC, Kavakli IH, Sancar A, Baur JA, Dang CV, Hogenesch JB, Weljie AM.

Cell Metab. 2017 May 2;25(5):1206. doi: 10.1016/j.cmet.2017.04.023. No abstract available.

PMID:
28467936
7.

The Nephila clavipes genome highlights the diversity of spider silk genes and their complex expression.

Babb PL, Lahens NF, Correa-Garhwal SM, Nicholson DN, Kim EJ, Hogenesch JB, Kuntner M, Higgins L, Hayashi CY, Agnarsson I, Voight BF.

Nat Genet. 2017 Jun;49(6):895-903. doi: 10.1038/ng.3852. Epub 2017 May 1.

PMID:
28459453
8.

CYCLOPS reveals human transcriptional rhythms in health and disease.

Anafi RC, Francey LJ, Hogenesch JB, Kim J.

Proc Natl Acad Sci U S A. 2017 May 16;114(20):5312-5317. doi: 10.1073/pnas.1619320114. Epub 2017 Apr 24.

9.

Clock Regulation of Metabolites Reveals Coupling between Transcription and Metabolism.

Krishnaiah SY, Wu G, Altman BJ, Growe J, Rhoades SD, Coldren F, Venkataraman A, Olarerin-George AO, Francey LJ, Mukherjee S, Girish S, Selby CP, Cal S, Er U, Sianati B, Sengupta A, Anafi RC, Kavakli IH, Sancar A, Baur JA, Dang CV, Hogenesch JB, Weljie AM.

Cell Metab. 2017 Apr 4;25(4):961-974.e4. doi: 10.1016/j.cmet.2017.03.019. Erratum in: Cell Metab. 2017 May 2;25(5):1206.

10.

Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation.

Love MI, Hogenesch JB, Irizarry RA.

Nat Biotechnol. 2016 Dec;34(12):1287-1291. doi: 10.1038/nbt.3682. Epub 2016 Sep 26.

11.

MetaCycle: an integrated R package to evaluate periodicity in large scale data.

Wu G, Anafi RC, Hughes ME, Kornacker K, Hogenesch JB.

Bioinformatics. 2016 Nov 1;32(21):3351-3353. Epub 2016 Jul 4.

12.

The Local Edge Machine: inference of dynamic models of gene regulation.

McGoff KA, Guo X, Deckard A, Kelliher CM, Leman AR, Francey LJ, Hogenesch JB, Haase SB, Harer JL.

Genome Biol. 2016 Oct 19;17(1):214.

13.

Deciphering the Duality of Clock and Growth Metabolism in a Cell Autonomous System Using NMR Profiling of the Secretome.

Sengupta A, Krishnaiah SY, Rhoades S, Growe J, Slaff B, Venkataraman A, Olarerin-George AO, Van Dang C, Hogenesch JB, Weljie AM.

Metabolites. 2016 Jul 27;6(3). pii: E23. doi: 10.3390/metabo6030023.

14.

Neural clocks and Neuropeptide F/Y regulate circadian gene expression in a peripheral metabolic tissue.

Erion R, King AN, Wu G, Hogenesch JB, Sehgal A.

Elife. 2016 Apr 14;5. pii: e13552. doi: 10.7554/eLife.13552.

15.

Discovering Biology in Periodic Data through Phase Set Enrichment Analysis (PSEA).

Zhang R, Podtelezhnikov AA, Hogenesch JB, Anafi RC.

J Biol Rhythms. 2016 Jun;31(3):244-57. doi: 10.1177/0748730416631895. Epub 2016 Mar 8.

PMID:
26955841
16.

A new view of transcriptome complexity and regulation through the lens of local splicing variations.

Vaquero-Garcia J, Barrera A, Gazzara MR, González-Vallinas J, Lahens NF, Hogenesch JB, Lynch KW, Barash Y.

Elife. 2016 Feb 1;5:e11752. doi: 10.7554/eLife.11752.

17.

The Liver Clock Controls Cholesterol Homeostasis through Trib1 Protein-mediated Regulation of PCSK9/Low Density Lipoprotein Receptor (LDLR) Axis.

Ma D, Liu T, Chang L, Rui C, Xiao Y, Li S, Hogenesch JB, Chen YE, Lin JD.

J Biol Chem. 2015 Dec 25;290(52):31003-12. doi: 10.1074/jbc.M115.685982. Epub 2015 Nov 7.

18.

Ubiquitin ligase Siah2 regulates RevErbα degradation and the mammalian circadian clock.

DeBruyne JP, Baggs JE, Sato TK, Hogenesch JB.

Proc Natl Acad Sci U S A. 2015 Oct 6;112(40):12420-5. doi: 10.1073/pnas.1501204112. Epub 2015 Sep 21.

19.

MYC Disrupts the Circadian Clock and Metabolism in Cancer Cells.

Altman BJ, Hsieh AL, Sengupta A, Krishnanaiah SY, Stine ZE, Walton ZE, Gouw AM, Venkataraman A, Li B, Goraksha-Hicks P, Diskin SJ, Bellovin DI, Simon MC, Rathmell JC, Lazar MA, Maris JM, Felsher DW, Hogenesch JB, Weljie AM, Dang CV.

Cell Metab. 2015 Dec 1;22(6):1009-19. doi: 10.1016/j.cmet.2015.09.003. Epub 2015 Sep 17.

20.

Benchmark analysis of algorithms for determining and quantifying full-length mRNA splice forms from RNA-seq data.

Hayer KE, Pizarro A, Lahens NF, Hogenesch JB, Grant GR.

Bioinformatics. 2015 Dec 15;31(24):3938-45. doi: 10.1093/bioinformatics/btv488. Epub 2015 Sep 3.

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