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Items: 1 to 20 of 100

1.

De Novo Sequencing, Assembly, and Annotation of Four Threespine Stickleback Genomes Based on Microfluidic Partitioned DNA Libraries.

Berner D, Roesti M, Bilobram S, Chan SK, Kirk H, Pandoh P, Taylor GA, Zhao Y, Jones SJM, DeFaveri J.

Genes (Basel). 2019 Jun 3;10(6). pii: E426. doi: 10.3390/genes10060426.

2.

Improvement of the Threespine Stickleback Genome Using a Hi-C-Based Proximity-Guided Assembly.

Peichel CL, Sullivan ST, Liachko I, White MA.

J Hered. 2017 Sep 1;108(6):693-700. doi: 10.1093/jhered/esx058.

3.
4.

Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags.

Hohenlohe PA, Bassham S, Etter PD, Stiffler N, Johnson EA, Cresko WA.

PLoS Genet. 2010 Feb 26;6(2):e1000862. doi: 10.1371/journal.pgen.1000862.

5.

Ancient genomic variation underlies repeated ecological adaptation in young stickleback populations.

Nelson TC, Cresko WA.

Evol Lett. 2018 Jan 26;2(1):9-21. doi: 10.1002/evl3.37. eCollection 2018 Feb.

6.

Transcriptome sequences spanning key developmental states as a resource for the study of the cestode Schistocephalus solidus, a threespine stickleback parasite.

H├ębert FO, Grambauer S, Barber I, Landry CR, Aubin-Horth N.

Gigascience. 2016 Jun 2;5:24. doi: 10.1186/s13742-016-0128-3.

7.

Identification of the centromeric repeat in the threespine stickleback fish (Gasterosteus aculeatus).

Cech JN, Peichel CL.

Chromosome Res. 2015 Dec;23(4):767-79. doi: 10.1007/s10577-015-9495-3. Epub 2015 Sep 30.

PMID:
26424612
8.

Divergent Fine-Scale Recombination Landscapes between a Freshwater and Marine Population of Threespine Stickleback Fish.

Shanfelter AF, Archambeault SL, White MA.

Genome Biol Evol. 2019 Jun 1;11(6):1573-1585. doi: 10.1093/gbe/evz090.

9.

Optimization of de novo transcriptome assembly from high-throughput short read sequencing data improves functional annotation for non-model organisms.

Haznedaroglu BZ, Reeves D, Rismani-Yazdi H, Peccia J.

BMC Bioinformatics. 2012 Jul 18;13:170. doi: 10.1186/1471-2105-13-170.

10.

Fusobacterium Genomics Using MinION and Illumina Sequencing Enables Genome Completion and Correction.

Todd SM, Settlage RE, Lahmers KK, Slade DJ.

mSphere. 2018 Jul 5;3(4). pii: e00269-18. doi: 10.1128/mSphere.00269-18.

11.
12.

RGAAT: A Reference-based Genome Assembly and Annotation Tool for New Genomes and Upgrade of Known Genomes.

Liu W, Wu S, Lin Q, Gao S, Ding F, Zhang X, Aljohi HA, Yu J, Hu S.

Genomics Proteomics Bioinformatics. 2018 Oct;16(5):373-381. doi: 10.1016/j.gpb.2018.03.006. Epub 2018 Dec 21.

13.

Characterization of 954 bovine full-CDS cDNA sequences.

Harhay GP, Sonstegard TS, Keele JW, Heaton MP, Clawson ML, Snelling WM, Wiedmann RT, Van Tassell CP, Smith TP.

BMC Genomics. 2005 Nov 23;6:166.

14.

De novo transcriptome assembly, annotation and comparison of four ecological and evolutionary model salmonid fish species.

Carruthers M, Yurchenko AA, Augley JJ, Adams CE, Herzyk P, Elmer KR.

BMC Genomics. 2018 Jan 8;19(1):32. doi: 10.1186/s12864-017-4379-x. Erratum in: BMC Genomics. 2018 Jun 11;19(1):448.

15.

Assessing the benefits of using mate-pairs to resolve repeats in de novo short-read prokaryotic assemblies.

Wetzel J, Kingsford C, Pop M.

BMC Bioinformatics. 2011 Apr 13;12:95. doi: 10.1186/1471-2105-12-95.

16.

Transcriptome sequencing in an ecologically important tree species: assembly, annotation, and marker discovery.

Parchman TL, Geist KS, Grahnen JA, Benkman CW, Buerkle CA.

BMC Genomics. 2010 Mar 16;11:180. doi: 10.1186/1471-2164-11-180.

17.

Reference-guided de novo assembly approach improves genome reconstruction for related species.

Lischer HEL, Shimizu KK.

BMC Bioinformatics. 2017 Nov 10;18(1):474. doi: 10.1186/s12859-017-1911-6.

18.

A Single Interacting Species Leads to Widespread Parallel Evolution of the Stickleback Genome.

Miller SE, Roesti M, Schluter D.

Curr Biol. 2019 Feb 4;29(3):530-537.e6. doi: 10.1016/j.cub.2018.12.044. Epub 2019 Jan 24.

PMID:
30686736
19.

Fast evolution from precast bricks: genomics of young freshwater populations of threespine stickleback Gasterosteus aculeatus.

Terekhanova NV, Logacheva MD, Penin AA, Neretina TV, Barmintseva AE, Bazykin GA, Kondrashov AS, Mugue NS.

PLoS Genet. 2014 Oct 9;10(10):e1004696. doi: 10.1371/journal.pgen.1004696. eCollection 2014 Oct.

20.

Genome sequencing of bacteria: sequencing, de novo assembly and rapid analysis using open source tools.

Kisand V, Lettieri T.

BMC Genomics. 2013 Apr 1;14:211. doi: 10.1186/1471-2164-14-211.

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