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Items: 1 to 50 of 64

1.

Universal method for robust detection of circadian state from gene expression.

Braun R, Kath WL, Iwanaszko M, Kula-Eversole E, Abbott SM, Reid KJ, Zee PC, Allada R.

Proc Natl Acad Sci U S A. 2018 Sep 10. pii: 201800314. doi: 10.1073/pnas.1800314115. [Epub ahead of print]

2.

Bootstrapping and Empirical Bayes Methods Improve Rhythm Detection in Sparsely Sampled Data.

Hutchison AL, Allada R, Dinner AR.

J Biol Rhythms. 2018 Aug;33(4):339-349. doi: 10.1177/0748730418789536.

PMID:
30101659
3.

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.

4.

Moisture Sorption-desorption Characteristics and the Corresponding Thermodynamic Properties of Carvedilol Phosphate.

Allada R, Maruthapillai A, Palanisamy K, Chappa P.

J Pharm Bioallied Sci. 2017 Jan-Mar;9(1):16-21. doi: 10.4103/0975-7406.206216.

5.

Molecular Mechanisms of Sleep Homeostasis in Flies and Mammals.

Allada R, Cirelli C, Sehgal A.

Cold Spring Harb Perspect Biol. 2017 Aug 1;9(8). pii: a027730. doi: 10.1101/cshperspect.a027730. Review.

PMID:
28432135
6.

Reply to Joly: Inferring causation from comprehensive analysis of observation.

Song A, Severini T, Allada R.

Proc Natl Acad Sci U S A. 2017 Apr 18;114(16):E3169. doi: 10.1073/pnas.1702816114. Epub 2017 Apr 11. No abstract available.

7.

How jet lag impairs Major League Baseball performance.

Song A, Severini T, Allada R.

Proc Natl Acad Sci U S A. 2017 Feb 7;114(6):1407-1412. doi: 10.1073/pnas.1608847114. Epub 2017 Jan 23.

8.

And the beat goes on: from clock to behavior.

Flourakis M, Allada R.

Nat Neurosci. 2016 Apr;19(4):529-30. doi: 10.1038/nn.4278. No abstract available.

PMID:
27021942
9.

Genetics of Circadian Rhythms.

Andreani TS, Itoh TQ, Yildirim E, Hwangbo DS, Allada R.

Sleep Med Clin. 2015 Dec;10(4):413-21. doi: 10.1016/j.jsmc.2015.08.007. Review.

10.

A Conserved Bicycle Model for Circadian Clock Control of Membrane Excitability.

Flourakis M, Kula-Eversole E, Hutchison AL, Han TH, Aranda K, Moose DL, White KP, Dinner AR, Lear BC, Ren D, Diekman CO, Raman IM, Allada R.

Cell. 2015 Aug 13;162(4):836-48. doi: 10.1016/j.cell.2015.07.036.

11.

A systems approach identifies networks and genes linking sleep and stress: implications for neuropsychiatric disorders.

Jiang P, Scarpa JR, Fitzpatrick K, Losic B, Gao VD, Hao K, Summa KC, Yang HS, Zhang B, Allada R, Vitaterna MH, Turek FW, Kasarskis A.

Cell Rep. 2015 May 5;11(5):835-48. doi: 10.1016/j.celrep.2015.04.003. Epub 2015 Apr 23.

12.

Improved statistical methods enable greater sensitivity in rhythm detection for genome-wide data.

Hutchison AL, Maienschein-Cline M, Chiang AH, Tabei SM, Gudjonson H, Bahroos N, Allada R, Dinner AR.

PLoS Comput Biol. 2015 Mar 20;11(3):e1004094. doi: 10.1371/journal.pcbi.1004094. eCollection 2015 Mar.

13.

Patch-clamp electrophysiology in Drosophila circadian pacemaker neurons.

Flourakis M, Allada R.

Methods Enzymol. 2015;552:23-44. doi: 10.1016/bs.mie.2014.10.005. Epub 2014 Dec 26. Review.

PMID:
25707271
14.

Knock, knock to reset the clock: mechanosensation and circadian rhythms.

van Alphen B, Allada R.

Cell Metab. 2014 May 6;19(5):739-40. doi: 10.1016/j.cmet.2014.04.011.

15.

Dual PDF signaling pathways reset clocks via TIMELESS and acutely excite target neurons to control circadian behavior.

Seluzicki A, Flourakis M, Kula-Eversole E, Zhang L, Kilman V, Allada R.

PLoS Biol. 2014 Mar 18;12(3):e1001810. doi: 10.1371/journal.pbio.1001810. eCollection 2014 Mar.

16.

Simultaneous estimation of degree of crystallinity in combination drug product of abacavir, lamivudine and neverapine using X-ray powder diffraction technique.

Kommavarapu P, Maruthapillai A, Allada R, Palanisamy K, Chappa P.

J Young Pharm. 2013 Dec;5(4):127-32. doi: 10.1016/j.jyp.2013.10.003. Epub 2013 Nov 14.

17.

UNC79 and UNC80, putative auxiliary subunits of the NARROW ABDOMEN ion channel, are indispensable for robust circadian locomotor rhythms in Drosophila.

Lear BC, Darrah EJ, Aldrich BT, Gebre S, Scott RL, Nash HA, Allada R.

PLoS One. 2013 Nov 5;8(11):e78147. doi: 10.1371/journal.pone.0078147. eCollection 2013.

18.

Emerging roles for post-transcriptional regulation in circadian clocks.

Lim C, Allada R.

Nat Neurosci. 2013 Nov;16(11):1544-50. doi: 10.1038/nn.3543. Epub 2013 Oct 28. Review.

PMID:
24165681
19.

ATAXIN-2 activates PERIOD translation to sustain circadian rhythms in Drosophila.

Lim C, Allada R.

Science. 2013 May 17;340(6134):875-9. doi: 10.1126/science.1234785.

20.

Cul3 and the BTB adaptor insomniac are key regulators of sleep homeostasis and a dopamine arousal pathway in Drosophila.

Pfeiffenberger C, Allada R.

PLoS Genet. 2012;8(10):e1003003. doi: 10.1371/journal.pgen.1003003. Epub 2012 Oct 4.

21.

The novel gene twenty-four defines a critical translational step in the Drosophila clock.

Lim C, Lee J, Choi C, Kilman VL, Kim J, Park SM, Jang SK, Allada R, Choe J.

Nature. 2011 Feb 17;470(7334):399-403. doi: 10.1038/nature09728.

22.

Processing sleep data created with the Drosophila Activity Monitoring (DAM) System.

Pfeiffenberger C, Lear BC, Keegan KP, Allada R.

Cold Spring Harb Protoc. 2010 Nov 1;2010(11):pdb.prot5520. doi: 10.1101/pdb.prot5520.

PMID:
21041393
23.

Processing circadian data collected from the Drosophila Activity Monitoring (DAM) System.

Pfeiffenberger C, Lear BC, Keegan KP, Allada R.

Cold Spring Harb Protoc. 2010 Nov 1;2010(11):pdb.prot5519. doi: 10.1101/pdb.prot5519.

PMID:
21041392
24.

Locomotor activity level monitoring using the Drosophila Activity Monitoring (DAM) System.

Pfeiffenberger C, Lear BC, Keegan KP, Allada R.

Cold Spring Harb Protoc. 2010 Nov 1;2010(11):pdb.prot5518. doi: 10.1101/pdb.prot5518.

PMID:
21041391
25.

Surprising gene expression patterns within and between PDF-containing circadian neurons in Drosophila.

Kula-Eversole E, Nagoshi E, Shang Y, Rodriguez J, Allada R, Rosbash M.

Proc Natl Acad Sci U S A. 2010 Jul 27;107(30):13497-502. doi: 10.1073/pnas.1002081107. Epub 2010 Jul 12.

26.

DN1(p) circadian neurons coordinate acute light and PDF inputs to produce robust daily behavior in Drosophila.

Zhang L, Chung BY, Lear BC, Kilman VL, Liu Y, Mahesh G, Meissner RA, Hardin PE, Allada R.

Curr Biol. 2010 Apr 13;20(7):591-9. doi: 10.1016/j.cub.2010.02.056. Epub 2010 Apr 1.

27.

Circadian organization of behavior and physiology in Drosophila.

Allada R, Chung BY.

Annu Rev Physiol. 2010;72:605-24. doi: 10.1146/annurev-physiol-021909-135815. Review.

28.

The CRYPTOCHROME photoreceptor gates PDF neuropeptide signaling to set circadian network hierarchy in Drosophila.

Zhang L, Lear BC, Seluzicki A, Allada R.

Curr Biol. 2009 Dec 15;19(23):2050-5. doi: 10.1016/j.cub.2009.10.058. Epub 2009 Nov 12.

29.

Genetic analysis of ectopic circadian clock induction in Drosophila.

Kilman VL, Allada R.

J Biol Rhythms. 2009 Oct;24(5):368-78. doi: 10.1177/0748730409343761.

30.

The neuropeptide PDF acts directly on evening pacemaker neurons to regulate multiple features of circadian behavior.

Lear BC, Zhang L, Allada R.

PLoS Biol. 2009 Jul;7(7):e1000154. doi: 10.1371/journal.pbio.1000154. Epub 2009 Jul 21.

31.

Perturbing dynamin reveals potent effects on the Drosophila circadian clock.

Kilman VL, Zhang L, Meissner RA, Burg E, Allada R.

PLoS One. 2009;4(4):e5235. doi: 10.1371/journal.pone.0005235. Epub 2009 Apr 22.

32.

The GABA(A) receptor RDL acts in peptidergic PDF neurons to promote sleep in Drosophila.

Chung BY, Kilman VL, Keath JR, Pitman JL, Allada R.

Curr Biol. 2009 Mar 10;19(5):386-90. doi: 10.1016/j.cub.2009.01.040. Epub 2009 Feb 19.

33.

How flies time when they're having brunch.

Allada R.

Cell Metab. 2008 Oct;8(4):279-80. doi: 10.1016/j.cmet.2008.09.007.

34.

TIMELESS is an important mediator of CK2 effects on circadian clock function in vivo.

Meissner RA, Kilman VL, Lin JM, Allada R.

J Neurosci. 2008 Sep 24;28(39):9732-40. doi: 10.1523/JNEUROSCI.0840-08.2008.

35.

Unearthing the phylogenetic roots of sleep.

Allada R, Siegel JM.

Curr Biol. 2008 Aug 5;18(15):R670-R679. doi: 10.1016/j.cub.2008.06.033. Review.

36.

Drosophila CK2 phosphorylates Hairy and regulates its activity in vivo.

Kahali B, Trott R, Paroush Z, Allada R, Bishop CP, Bidwai AP.

Biochem Biophys Res Commun. 2008 Sep 5;373(4):637-42. doi: 10.1016/j.bbrc.2008.06.084. Epub 2008 Jul 2.

37.

An emerging link between general anesthesia and sleep.

Allada R.

Proc Natl Acad Sci U S A. 2008 Feb 19;105(7):2257-8. doi: 10.1073/pnas.0711532105. Epub 2008 Feb 12. No abstract available.

38.

Dominant-negative CK2alpha induces potent effects on circadian rhythmicity.

Smith EM, Lin JM, Meissner RA, Allada R.

PLoS Genet. 2008 Jan;4(1):e12. doi: 10.1371/journal.pgen.0040012. Epub 2007 Dec 13.

39.

Meta-analysis of Drosophila circadian microarray studies identifies a novel set of rhythmically expressed genes.

Keegan KP, Pradhan S, Wang JP, Allada R.

PLoS Comput Biol. 2007 Nov;3(11):e208. Epub 2007 Sep 11.

40.

Clockwork orange encodes a transcriptional repressor important for circadian-clock amplitude in Drosophila.

Lim C, Chung BY, Pitman JL, McGill JJ, Pradhan S, Lee J, Keegan KP, Choe J, Allada R.

Curr Biol. 2007 Jun 19;17(12):1082-9. Epub 2007 Jun 7.

41.
42.

Drosophila CK2 regulates lateral-inhibition during eye and bristle development.

Bose A, Kahali B, Zhang S, Lin JM, Allada R, Karandikar U, Bidwai AP.

Mech Dev. 2006 Sep;123(9):649-64. Epub 2006 Jul 15.

43.

A dynamic role for the mushroom bodies in promoting sleep in Drosophila.

Pitman JL, McGill JJ, Keegan KP, Allada R.

Nature. 2006 Jun 8;441(7094):753-6.

PMID:
16760979
44.

The ion channel narrow abdomen is critical for neural output of the Drosophila circadian pacemaker.

Lear BC, Lin JM, Keath JR, McGill JJ, Raman IM, Allada R.

Neuron. 2005 Dec 22;48(6):965-76.

45.

Casein kinase 2, circadian clocks, and the flight from mutagenic light.

Allada R, Meissner RA.

Mol Cell Biochem. 2005 Jun;274(1-2):141-9. Review.

PMID:
16335534
46.

In vivo circadian function of casein kinase 2 phosphorylation sites in Drosophila PERIOD.

Lin JM, Schroeder A, Allada R.

J Neurosci. 2005 Nov 30;25(48):11175-83.

47.

A G protein-coupled receptor, groom-of-PDF, is required for PDF neuron action in circadian behavior.

Lear BC, Merrill CE, Lin JM, Schroeder A, Zhang L, Allada R.

Neuron. 2005 Oct 20;48(2):221-7.

48.

Circadian rhythms in Drosophila.

Rosbash M, Allada R, McDonald M, Peng Y, Zhao J.

Novartis Found Symp. 2003;253:223-32; discussion 52-5, 102-9, 232-7 passim.

PMID:
14712924
49.

A recessive mutant of Drosophila Clock reveals a role in circadian rhythm amplitude.

Allada R, Kadener S, Nandakumar N, Rosbash M.

EMBO J. 2003 Jul 1;22(13):3367-75.

50.

Drosophila clock can generate ectopic circadian clocks.

Zhao J, Kilman VL, Keegan KP, Peng Y, Emery P, Rosbash M, Allada R.

Cell. 2003 Jun 13;113(6):755-66.

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