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Items: 1 to 20 of 102

1.

Using BEAN-counter to quantify genetic interactions from multiplexed barcode sequencing experiments.

Simpkins SW, Deshpande R, Nelson J, Li SC, Piotrowski JS, Ward HN, Yashiroda Y, Osada H, Yoshida M, Boone C, Myers CL.

Nat Protoc. 2019 Feb;14(2):415-440. doi: 10.1038/s41596-018-0099-1.

PMID:
30635653
2.

Competitive genomic screens of barcoded yeast libraries.

Smith AM, Durbic T, Oh J, Urbanus M, Proctor M, Heisler LE, Giaever G, Nislow C.

J Vis Exp. 2011 Aug 11;(54). pii: 2864. doi: 10.3791/2864.

3.

Generation and analysis of a barcode-tagged insertion mutant library in the fission yeast Schizosaccharomyces pombe.

Chen BR, Hale DC, Ciolek PJ, Runge KW.

BMC Genomics. 2012 May 3;13:161. doi: 10.1186/1471-2164-13-161.

4.

Rapid quantification of mutant fitness in diverse bacteria by sequencing randomly bar-coded transposons.

Wetmore KM, Price MN, Waters RJ, Lamson JS, He J, Hoover CA, Blow MJ, Bristow J, Butland G, Arkin AP, Deutschbauer A.

MBio. 2015 May 12;6(3):e00306-15. doi: 10.1128/mBio.00306-15.

5.

Dissecting a complex chemical stress: chemogenomic profiling of plant hydrolysates.

Skerker JM, Leon D, Price MN, Mar JS, Tarjan DR, Wetmore KM, Deutschbauer AM, Baumohl JK, Bauer S, Ibáñez AB, Mitchell VD, Wu CH, Hu P, Hazen T, Arkin AP.

Mol Syst Biol. 2013 Jun 18;9:674. doi: 10.1038/msb.2013.30.

6.

High-throughput, image-based screening of pooled genetic-variant libraries.

Emanuel G, Moffitt JR, Zhuang X.

Nat Methods. 2017 Dec;14(12):1159-1162. doi: 10.1038/nmeth.4495. Epub 2017 Oct 30.

7.

Sample Preparation for Fungal Community Analysis by High-Throughput Sequencing of Barcode Amplicons.

Clemmensen KE, Ihrmark K, Durling MB, Lindahl BD.

Methods Mol Biol. 2016;1399:61-88. doi: 10.1007/978-1-4939-3369-3_4.

PMID:
26791497
8.

Multiplexed precision genome editing with trackable genomic barcodes in yeast.

Roy KR, Smith JD, Vonesch SC, Lin G, Tu CS, Lederer AR, Chu A, Suresh S, Nguyen M, Horecka J, Tripathi A, Burnett WT, Morgan MA, Schulz J, Orsley KM, Wei W, Aiyar RS, Davis RW, Bankaitis VA, Haber JE, Salit ML, St Onge RP, Steinmetz LM.

Nat Biotechnol. 2018 Jul;36(6):512-520. doi: 10.1038/nbt.4137. Epub 2018 May 7.

9.

Efficient yeast ChIP-Seq using multiplex short-read DNA sequencing.

Lefrançois P, Euskirchen GM, Auerbach RK, Rozowsky J, Gibson T, Yellman CM, Gerstein M, Snyder M.

BMC Genomics. 2009 Jan 21;10:37. doi: 10.1186/1471-2164-10-37.

10.

Rapid identification of chemical genetic interactions in Saccharomyces cerevisiae.

Dilworth D, Nelson CJ.

J Vis Exp. 2015 Apr 5;(98):e52345. doi: 10.3791/52345.

11.

Mapping DNA damage-dependent genetic interactions in yeast via party mating and barcode fusion genetics.

Díaz-Mejía JJ, Celaj A, Mellor JC, Coté A, Balint A, Ho B, Bansal P, Shaeri F, Gebbia M, Weile J, Verby M, Karkhanina A, Zhang Y, Wong C, Rich J, Prendergast D, Gupta G, Öztürk S, Durocher D, Brown GW, Roth FP.

Mol Syst Biol. 2018 May 28;14(5):e7985. doi: 10.15252/msb.20177985.

12.

Dual-barcoded shotgun expression library sequencing for high-throughput characterization of functional traits in bacteria.

Mutalik VK, Novichkov PS, Price MN, Owens TK, Callaghan M, Carim S, Deutschbauer AM, Arkin AP.

Nat Commun. 2019 Jan 18;10(1):308. doi: 10.1038/s41467-018-08177-8.

13.

Functional analysis with a barcoder yeast gene overexpression system.

Douglas AC, Smith AM, Sharifpoor S, Yan Z, Durbic T, Heisler LE, Lee AY, Ryan O, Göttert H, Surendra A, van Dyk D, Giaever G, Boone C, Nislow C, Andrews BJ.

G3 (Bethesda). 2012 Oct;2(10):1279-89. doi: 10.1534/g3.112.003400. Epub 2012 Oct 1.

14.

Next-generation DNA barcoding: using next-generation sequencing to enhance and accelerate DNA barcode capture from single specimens.

Shokralla S, Gibson JF, Nikbakht H, Janzen DH, Hallwachs W, Hajibabaei M.

Mol Ecol Resour. 2014 Sep;14(5):892-901. doi: 10.1111/1755-0998.12236. Epub 2014 Feb 19.

15.

Large-scale DNA Barcode Library Generation for Biomolecule Identification in High-throughput Screens.

Lyons E, Sheridan P, Tremmel G, Miyano S, Sugano S.

Sci Rep. 2017 Oct 24;7(1):13899. doi: 10.1038/s41598-017-12825-2.

16.

Chemical genomic profiling via barcode sequencing to predict compound mode of action.

Piotrowski JS, Simpkins SW, Li SC, Deshpande R, McIlwain SJ, Ong IM, Myers CL, Boone C, Andersen RJ.

Methods Mol Biol. 2015;1263:299-318. doi: 10.1007/978-1-4939-2269-7_23.

17.

Filling reference gaps via assembling DNA barcodes using high-throughput sequencing-moving toward barcoding the world.

Liu S, Yang C, Zhou C, Zhou X.

Gigascience. 2017 Dec 1;6(12):1-8. doi: 10.1093/gigascience/gix104.

18.

BEST: barcode enabled sequencing of tetrads.

Scott AC, Ludlow CL, Cromie GA, Dudley AM.

J Vis Exp. 2014 May 1;(87). doi: 10.3791/51401.

19.

Paradigm for industrial strain improvement identifies sodium acetate tolerance loci in Zymomonas mobilis and Saccharomyces cerevisiae.

Yang S, Land ML, Klingeman DM, Pelletier DA, Lu TY, Martin SL, Guo HB, Smith JC, Brown SD.

Proc Natl Acad Sci U S A. 2010 Jun 8;107(23):10395-400. doi: 10.1073/pnas.0914506107. Epub 2010 May 19.

20.

Genome-scale modeling and in silico analysis of ethanologenic bacteria Zymomonas mobilis.

Widiastuti H, Kim JY, Selvarasu S, Karimi IA, Kim H, Seo JS, Lee DY.

Biotechnol Bioeng. 2011 Mar;108(3):655-65. doi: 10.1002/bit.22965. Epub 2010 Nov 10.

PMID:
20967753

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