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Items: 1 to 20 of 82

1.

Computational Inference Software for Tetrad Assembly from Randomly Arrayed Yeast Colonies.

Sakhanenko NA, Cromie GA, Dudley AM, Galas DJ.

G3 (Bethesda). 2019 Jul 9;9(7):2071-2088. doi: 10.1534/g3.119.400166.

2.

Extracellular Vesicle Encapsulated MicroRNAs in Patients with Type 2 Diabetes Are Affected by Metformin Treatment.

Ghai V, Kim TK, Etheridge A, Nielsen T, Hansen T, Pedersen O, Galas D, Wang K.

J Clin Med. 2019 May 7;8(5). pii: E617. doi: 10.3390/jcm8050617.

3.

Phospho-RNA-seq: a modified small RNA-seq method that reveals circulating mRNA and lncRNA fragments as potential biomarkers in human plasma.

Giraldez MD, Spengler RM, Etheridge A, Goicochea AJ, Tuck M, Choi SW, Galas DJ, Tewari M.

EMBO J. 2019 Jun 3;38(11). pii: e101695. doi: 10.15252/embj.2019101695. Epub 2019 May 3.

4.

exRNA Atlas Analysis Reveals Distinct Extracellular RNA Cargo Types and Their Carriers Present across Human Biofluids.

Murillo OD, Thistlethwaite W, Rozowsky J, Subramanian SL, Lucero R, Shah N, Jackson AR, Srinivasan S, Chung A, Laurent CD, Kitchen RR, Galeev T, Warrell J, Diao JA, Welsh JA, Hanspers K, Riutta A, Burgstaller-Muehlbacher S, Shah RV, Yeri A, Jenkins LM, Ahsen ME, Cordon-Cardo C, Dogra N, Gifford SM, Smith JT, Stolovitzky G, Tewari AK, Wunsch BH, Yadav KK, Danielson KM, Filant J, Moeller C, Nejad P, Paul A, Simonson B, Wong DK, Zhang X, Balaj L, Gandhi R, Sood AK, Alexander RP, Wang L, Wu C, Wong DTW, Galas DJ, Van Keuren-Jensen K, Patel T, Jones JC, Das S, Cheung KH, Pico AR, Su AI, Raffai RL, Laurent LC, Roth ME, Gerstein MB, Milosavljevic A.

Cell. 2019 Apr 4;177(2):463-477.e15. doi: 10.1016/j.cell.2019.02.018.

5.

The Extracellular RNA Communication Consortium: Establishing Foundational Knowledge and Technologies for Extracellular RNA Research.

Das S; Extracellular RNA Communication Consortium, Ansel KM, Bitzer M, Breakefield XO, Charest A, Galas DJ, Gerstein MB, Gupta M, Milosavljevic A, McManus MT, Patel T, Raffai RL, Rozowsky J, Roth ME, Saugstad JA, Van Keuren-Jensen K, Weaver AM, Laurent LC.

Cell. 2019 Apr 4;177(2):231-242. doi: 10.1016/j.cell.2019.03.023. Review.

PMID:
30951667
6.

Multivariate Analysis of Data Sets with Missing Values: An Information Theory-Based Reliability Function.

Uechi L, Galas DJ, Sakhanenko NA.

J Comput Biol. 2019 Feb;26(2):152-171. doi: 10.1089/cmb.2018.0179. Epub 2018 Nov 29.

7.

The RNA Complement of Outer Membrane Vesicles From Salmonella enterica Serovar Typhimurium Under Distinct Culture Conditions.

Malabirade A, Habier J, Heintz-Buschart A, May P, Godet J, Halder R, Etheridge A, Galas D, Wilmes P, Fritz JV.

Front Microbiol. 2018 Aug 30;9:2015. doi: 10.3389/fmicb.2018.02015. eCollection 2018.

8.

Erratum: Comprehensive multi-center assessment of small RNA-seq methods for quantitative miRNA profiling.

Giraldez MD, Spengler RM, Etheridge A, Godoy PM, Barczak AJ, Srinivasan S, Hoff PL, Tanriverdi K, Courtright A, Lu S, Khoory J, Rubio R, Baxter D, Driedonks TAP, Buermans HPJ, Hoen ENMN, Jiang H, Wang K, Ghiran I, Wang YE, Keuren-Jensen KV, Freedman JE, Woodruff PG, Laurent LC, Erle DJ, Galas DJ, Tewari M.

Nat Biotechnol. 2018 Sep 6;36(9):899. doi: 10.1038/nbt0918-899b. No abstract available.

9.

Comprehensive multi-center assessment of small RNA-seq methods for quantitative miRNA profiling.

Giraldez MD, Spengler RM, Etheridge A, Godoy PM, Barczak AJ, Srinivasan S, De Hoff PL, Tanriverdi K, Courtright A, Lu S, Khoory J, Rubio R, Baxter D, Driedonks TAP, Buermans HPJ, Nolte-'t Hoen ENM, Jiang H, Wang K, Ghiran I, Wang YE, Van Keuren-Jensen K, Freedman JE, Woodruff PG, Laurent LC, Erle DJ, Galas DJ, Tewari M.

Nat Biotechnol. 2018 Sep;36(8):746-757. doi: 10.1038/nbt.4183. Epub 2018 Jul 16.

10.

Role of MicroRNAs in Renal Parenchymal Diseases-A New Dimension.

Shaffi SK, Galas D, Etheridge A, Argyropoulos C.

Int J Mol Sci. 2018 Jun 17;19(6). pii: E1797. doi: 10.3390/ijms19061797. Review.

11.

Genome-wide Profiling of Urinary Extracellular Vesicle microRNAs Associated With Diabetic Nephropathy in Type 1 Diabetes.

Ghai V, Wu X, Bheda-Malge A, Argyropoulos CP, Bernardo JF, Orchard T, Galas D, Wang K.

Kidney Int Rep. 2017 Dec 1;3(3):555-572. doi: 10.1016/j.ekir.2017.11.019. eCollection 2018 May.

12.

Small RNA profiling of low biomass samples: identification and removal of contaminants.

Heintz-Buschart A, Yusuf D, Kaysen A, Etheridge A, Fritz JV, May P, de Beaufort C, Upadhyaya BB, Ghosal A, Galas DJ, Wilmes P.

BMC Biol. 2018 May 14;16(1):52. doi: 10.1186/s12915-018-0522-7.

13.

Preparation of Small RNA NGS Libraries from Biofluids.

Etheridge A, Wang K, Baxter D, Galas D.

Methods Mol Biol. 2018;1740:163-175. doi: 10.1007/978-1-4939-7652-2_13.

PMID:
29388143
14.

sRNAnalyzer-a flexible and customizable small RNA sequencing data analysis pipeline.

Wu X, Kim TK, Baxter D, Scherler K, Gordon A, Fong O, Etheridge A, Galas DJ, Wang K.

Nucleic Acids Res. 2017 Dec 1;45(21):12140-12151. doi: 10.1093/nar/gkx999.

15.

The Information Content of Discrete Functions and Their Application in Genetic Data Analysis.

Sakhanenko NA, Kunert-Graf J, Galas DJ.

J Comput Biol. 2017 Dec;24(12):1153-1178. doi: 10.1089/cmb.2017.0143. Epub 2017 Oct 13.

16.

Reprogramming progeria fibroblasts re-establishes a normal epigenetic landscape.

Chen Z, Chang WY, Etheridge A, Strickfaden H, Jin Z, Palidwor G, Cho JH, Wang K, Kwon SY, Doré C, Raymond A, Hotta A, Ellis J, Kandel RA, Dilworth FJ, Perkins TJ, Hendzel MJ, Galas DJ, Stanford WL.

Aging Cell. 2017 Aug;16(4):870-887. doi: 10.1111/acel.12621. Epub 2017 Jun 8.

17.

Modeling bias and variation in the stochastic processes of small RNA sequencing.

Argyropoulos C, Etheridge A, Sakhanenko N, Galas D.

Nucleic Acids Res. 2017 Jun 20;45(11):e104. doi: 10.1093/nar/gkx199.

18.

A genome wide dosage suppressor network reveals genomic robustness.

Patra B, Kon Y, Yadav G, Sevold AW, Frumkin JP, Vallabhajosyula RR, Hintze A, Østman B, Schossau J, Bhan A, Marzolf B, Tamashiro JK, Kaur A, Baliga NS, Grayhack EJ, Adami C, Galas DJ, Raval A, Phizicky EM, Ray A.

Nucleic Acids Res. 2017 Jan 9;45(1):255-270. doi: 10.1093/nar/gkw1148. Epub 2016 Nov 29.

19.

Sources and Functions of Extracellular Small RNAs in Human Circulation.

Fritz JV, Heintz-Buschart A, Ghosal A, Wampach L, Etheridge A, Galas D, Wilmes P.

Annu Rev Nutr. 2016 Jul 17;36:301-36. doi: 10.1146/annurev-nutr-071715-050711. Epub 2016 May 13. Review.

20.

Genomic architecture of inflammatory bowel disease in five families with multiple affected individuals.

Stittrich AB, Ashworth J, Shi M, Robinson M, Mauldin D, Brunkow ME, Biswas S, Kim JM, Kwon KS, Jung JU, Galas D, Serikawa K, Duerr RH, Guthery SL, Peschon J, Hood L, Roach JC, Glusman G.

Hum Genome Var. 2016 Jan 7;3:15060. doi: 10.1038/hgv.2015.60. eCollection 2016.

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