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Items: 1 to 20 of 78

1.

Meta-analysis reveals conserved cell cycle transcriptional network across multiple human cell types.

Giotti B, Joshi A, Freeman TC.

BMC Genomics. 2017 Jan 5;18(1):30. doi: 10.1186/s12864-016-3435-2.

2.

Investigating Conservation of the Cell-Cycle-Regulated Transcriptional Program in the Fungal Pathogen, Cryptococcus neoformans.

Kelliher CM, Leman AR, Sierra CS, Haase SB.

PLoS Genet. 2016 Dec 5;12(12):e1006453. doi: 10.1371/journal.pgen.1006453. eCollection 2016 Dec.

3.

Order restricted inference for oscillatory systems for detecting rhythmic signals.

Larriba Y, Rueda C, Fernández MA, Peddada SD.

Nucleic Acids Res. 2016 Dec 15;44(22):e163. Epub 2016 Sep 4.

4.

The CDK-APC/C Oscillator Predominantly Entrains Periodic Cell-Cycle Transcription.

Rahi SJ, Pecani K, Ondracka A, Oikonomou C, Cross FR.

Cell. 2016 Apr 7;165(2):475-87. doi: 10.1016/j.cell.2016.02.060.

5.

Mathematical modelling of transcriptional heterogeneity identifies novel markers and subpopulations in complex tissues.

Wang N, Hoffman EP, Chen L, Chen L, Zhang Z, Liu C, Yu G, Herrington DM, Clarke R, Wang Y.

Sci Rep. 2016 Jan 7;6:18909. doi: 10.1038/srep18909.

6.

Oscope identifies oscillatory genes in unsynchronized single-cell RNA-seq experiments.

Leng N, Chu LF, Barry C, Li Y, Choi J, Li X, Jiang P, Stewart RM, Thomson JA, Kendziorski C.

Nat Methods. 2015 Oct;12(10):947-950. doi: 10.1038/nmeth.3549. Epub 2015 Aug 24.

7.

SW1PerS: Sliding windows and 1-persistence scoring; discovering periodicity in gene expression time series data.

Perea JA, Deckard A, Haase SB, Harer J.

BMC Bioinformatics. 2015 Aug 16;16:257. doi: 10.1186/s12859-015-0645-6.

8.

Determination of Temporal Order among the Components of an Oscillatory System.

Barragán S, Rueda C, Fernández MA, Peddada SD.

PLoS One. 2015 Jul 7;10(7):e0124842. doi: 10.1371/journal.pone.0124842. eCollection 2015.

9.

Circadian rhythms and post-transcriptional regulation in higher plants.

Romanowski A, Yanovsky MJ.

Front Plant Sci. 2015 Jun 12;6:437. doi: 10.3389/fpls.2015.00437. eCollection 2015. Review.

10.

Decoupling of divergent gene regulation by sequence-specific DNA binding factors.

Yan C, Zhang D, Raygoza Garay JA, Mwangi MM, Bai L.

Nucleic Acids Res. 2015 Sep 3;43(15):7292-305. doi: 10.1093/nar/gkv618. Epub 2015 Jun 16.

11.

Coupling of Cellular Processes and Their Coordinated Oscillations under Continuous Light in Cyanothece sp. ATCC 51142, a Diazotrophic Unicellular Cyanobacterium.

Krishnakumar S, Gaudana SB, Vinh NX, Viswanathan GA, Chetty M, Wangikar PP.

PLoS One. 2015 May 14;10(5):e0125148. doi: 10.1371/journal.pone.0125148. eCollection 2015.

12.

Identification of under-detected periodicity in time-series microarray data by using empirical mode decomposition.

Chen CR, Shu WY, Chang CW, Hsu IC.

PLoS One. 2014 Nov 5;9(11):e111719. doi: 10.1371/journal.pone.0111719. eCollection 2014.

13.

Quantifying periodicity in omics data.

Amariei C, Tomita M, Murray DB.

Front Cell Dev Biol. 2014 Aug 19;2:40. doi: 10.3389/fcell.2014.00040. eCollection 2014.

14.

Circadian rhythm reprogramming during lung inflammation.

Haspel JA, Chettimada S, Shaik RS, Chu JH, Raby BA, Cernadas M, Carey V, Process V, Hunninghake GM, Ifedigbo E, Lederer JA, Englert J, Pelton A, Coronata A, Fredenburgh LE, Choi AM.

Nat Commun. 2014 Sep 11;5:4753. doi: 10.1038/ncomms5753.

15.

Biological network exploration with Cytoscape 3.

Su G, Morris JH, Demchak B, Bader GD.

Curr Protoc Bioinformatics. 2014 Sep 8;47:8.13.1-24. doi: 10.1002/0471250953.bi0813s47.

16.

Circadian regulation of myocardial sarcomeric Titin-cap (Tcap, telethonin): identification of cardiac clock-controlled genes using open access bioinformatics data.

Podobed PS, Alibhai FJ, Chow CW, Martino TA.

PLoS One. 2014 Aug 14;9(8):e104907. doi: 10.1371/journal.pone.0104907. eCollection 2014.

17.

Strengths and limitations of period estimation methods for circadian data.

Zielinski T, Moore AM, Troup E, Halliday KJ, Millar AJ.

PLoS One. 2014 May 8;9(5):e96462. doi: 10.1371/journal.pone.0096462. eCollection 2014.

18.

Global analysis of cell cycle gene expression of the legume symbiont Sinorhizobium meliloti.

De Nisco NJ, Abo RP, Wu CM, Penterman J, Walker GC.

Proc Natl Acad Sci U S A. 2014 Mar 4;111(9):3217-24. doi: 10.1073/pnas.1400421111. Epub 2014 Feb 5.

19.

Periodic mRNA synthesis and degradation co-operate during cell cycle gene expression.

Eser P, Demel C, Maier KC, Schwalb B, Pirkl N, Martin DE, Cramer P, Tresch A.

Mol Syst Biol. 2014 Jan 30;10:717. doi: 10.1002/msb.134886. Print 2014. Erratum in: Mol Syst Biol. 2014;10:726.

20.

IFN-γ signaling maintains skin pigmentation homeostasis through regulation of melanosome maturation.

Natarajan VT, Ganju P, Singh A, Vijayan V, Kirty K, Yadav S, Puntambekar S, Bajaj S, Dani PP, Kar HK, Gadgil CJ, Natarajan K, Rani R, Gokhale RS.

Proc Natl Acad Sci U S A. 2014 Feb 11;111(6):2301-6. doi: 10.1073/pnas.1304988111. Epub 2014 Jan 28.

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