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Items: 19

1.

Best practice data life cycle approaches for the life sciences.

Griffin PC, Khadake J, LeMay KS, Lewis SE, Orchard S, Pask A, Pope B, Roessner U, Russell K, Seemann T, Treloar A, Tyagi S, Christiansen JH, Dayalan S, Gladman S, Hangartner SB, Hayden HL, Ho WWH, Keeble-Gagnère G, Korhonen PK, Neish P, Prestes PR, Richardson MF, Watson-Haigh NS, Wyres KL, Young ND, Schneider MV.

Version 2. F1000Res. 2017 Aug 31 [revised 2018 Jan 1];6:1618. doi: 10.12688/f1000research.12344.2. eCollection 2017.

2.

Community-Driven Data Analysis Training for Biology.

Batut B, Hiltemann S, Bagnacani A, Baker D, Bhardwaj V, Blank C, Bretaudeau A, Brillet-Guéguen L, Čech M, Chilton J, Clements D, Doppelt-Azeroual O, Erxleben A, Freeberg MA, Gladman S, Hoogstrate Y, Hotz HR, Houwaart T, Jagtap P, Larivière D, Le Corguillé G, Manke T, Mareuil F, Ramírez F, Ryan D, Sigloch FC, Soranzo N, Wolff J, Videm P, Wolfien M, Wubuli A, Yusuf D; Galaxy Training Network, Taylor J, Backofen R, Nekrutenko A, Grüning B.

Cell Syst. 2018 Jun 27;6(6):752-758.e1. doi: 10.1016/j.cels.2018.05.012.

3.

Emergence of High-Level Colistin Resistance in an Acinetobacter baumannii Clinical Isolate Mediated by Inactivation of the Global Regulator H-NS.

Deveson Lucas D, Crane B, Wright A, Han ML, Moffatt J, Bulach D, Gladman SL, Powell D, Aranda J, Seemann T, Machado D, Pacheco T, Marques T, Viveiros M, Nation R, Li J, Harper M, Boyce JD.

Antimicrob Agents Chemother. 2018 Jun 26;62(7). pii: e02442-17. doi: 10.1128/AAC.02442-17. Print 2018 Jul.

4.

Establishing a distributed national research infrastructure providing bioinformatics support to life science researchers in Australia.

Schneider MV, Griffin PC, Tyagi S, Flannery M, Dayalan S, Gladman S, Watson-Haigh N, Bayer PE, Charleston M, Cooke I, Cook R, Edwards RJ, Edwards D, Gorse D, McConville M, Powell D, Wilkins MR, Lonie A.

Brief Bioinform. 2019 Mar 22;20(2):384-389. doi: 10.1093/bib/bbx071.

5.

Four simple recommendations to encourage best practices in research software.

Jiménez RC, Kuzak M, Alhamdoosh M, Barker M, Batut B, Borg M, Capella-Gutierrez S, Chue Hong N, Cook M, Corpas M, Flannery M, Garcia L, Gelpí JL, Gladman S, Goble C, González Ferreiro M, Gonzalez-Beltran A, Griffin PC, Grüning B, Hagberg J, Holub P, Hooft R, Ison J, Katz DS, Leskošek B, López Gómez F, Oliveira LJ, Mellor D, Mosbergen R, Mulder N, Perez-Riverol Y, Pergl R, Pichler H, Pope B, Sanz F, Schneider MV, Stodden V, Suchecki R, Svobodová Vařeková R, Talvik HA, Todorov I, Treloar A, Tyagi S, van Gompel M, Vaughan D, Via A, Wang X, Watson-Haigh NS, Crouch S.

F1000Res. 2017 Jun 13;6. pii: ELIXIR-876. doi: 10.12688/f1000research.11407.1. eCollection 2017.

6.

Porphyromonas gingivalis Uses Specific Domain Rearrangements and Allelic Exchange to Generate Diversity in Surface Virulence Factors.

Dashper SG, Mitchell HL, Seers CA, Gladman SL, Seemann T, Bulach DM, Chandry PS, Cross KJ, Cleal SM, Reynolds EC.

Front Microbiol. 2017 Jan 26;8:48. doi: 10.3389/fmicb.2017.00048. eCollection 2017.

7.

Genomics Virtual Laboratory: A Practical Bioinformatics Workbench for the Cloud.

Afgan E, Sloggett C, Goonasekera N, Makunin I, Benson D, Crowe M, Gladman S, Kowsar Y, Pheasant M, Horst R, Lonie A.

PLoS One. 2015 Oct 26;10(10):e0140829. doi: 10.1371/journal.pone.0140829. eCollection 2015.

8.

Large tandem chromosome expansions facilitate niche adaptation during persistent infection with drug-resistant Staphylococcus aureus.

Gao W, Monk IR, Tobias NJ, Gladman SL, Seemann T, Stinear TP, Howden BP.

Microb Genom. 2015 Aug 3;1(2):e000026. doi: 10.1099/mgen.0.000026. eCollection 2015 Aug.

9.

Comparative Genomic Analysis of Asian Haemorrhagic Septicaemia-Associated Strains of Pasteurella multocida Identifies More than 90 Haemorrhagic Septicaemia-Specific Genes.

Moustafa AM, Seemann T, Gladman S, Adler B, Harper M, Boyce JD, Bennett MD.

PLoS One. 2015 Jul 7;10(7):e0130296. doi: 10.1371/journal.pone.0130296. eCollection 2015.

10.

Using the local immune response from the natural buffalo host to generate an antibody fragment library that binds the early larval stages of Schistosoma japonicum.

Hosking CG, Driguez P, McWilliam HE, Ilag LL, Gladman S, Li Y, Piedrafita D, McManus DP, Meeusen EN, de Veer MJ.

Int J Parasitol. 2015 Sep;45(11):729-40. doi: 10.1016/j.ijpara.2015.05.002. Epub 2015 Jun 24.

PMID:
26116907
11.

Docosahexaenoic acid attenuates the early inflammatory response following spinal cord injury in mice: in-vivo and in-vitro studies.

Paterniti I, Impellizzeri D, Di Paola R, Esposito E, Gladman S, Yip P, Priestley JV, Michael-Titus AT, Cuzzocrea S.

J Neuroinflammation. 2014 Jan 10;11:6. doi: 10.1186/1742-2094-11-6.

12.

Dynamics of vitamin D in patients with mild or inactive inflammatory bowel disease and their families.

Grunbaum A, Holcroft C, Heilpern D, Gladman S, Burstein B, Menard M, Al-Abbad J, Cassoff J, MacNamara E, Gordon PH, Szilagyi A.

Nutr J. 2013 Nov 9;12(1):145. doi: 10.1186/1475-2891-12-145.

13.

The omega-3 fatty acid eicosapentaenoic acid accelerates disease progression in a model of amyotrophic lateral sclerosis.

Yip PK, Pizzasegola C, Gladman S, Biggio ML, Marino M, Jayasinghe M, Ullah F, Dyall SC, Malaspina A, Bendotti C, Michael-Titus A.

PLoS One. 2013 Apr 19;8(4):e61626. doi: 10.1371/journal.pone.0061626. Print 2013.

14.

Transgenic mice with high endogenous omega-3 fatty acids are protected from spinal cord injury.

Lim SN, Gladman SJ, Dyall SC, Patel U, Virani N, Kang JX, Priestley JV, Michael-Titus AT.

Neurobiol Dis. 2013 Mar;51:104-12. doi: 10.1016/j.nbd.2012.10.021. Epub 2012 Nov 2.

PMID:
23123586
15.

A Genomic Island in Salmonella enterica ssp. salamae provides new insights on the genealogy of the locus of enterocyte effacement.

Chandry PS, Gladman S, Moore SC, Seemann T, Crandall KA, Fegan N.

PLoS One. 2012;7(7):e41615. doi: 10.1371/journal.pone.0041615. Epub 2012 Jul 30.

16.

Comparative analysis of the first complete Enterococcus faecium genome.

Lam MM, Seemann T, Bulach DM, Gladman SL, Chen H, Haring V, Moore RJ, Ballard S, Grayson ML, Johnson PD, Howden BP, Stinear TP.

J Bacteriol. 2012 May;194(9):2334-41. doi: 10.1128/JB.00259-12. Epub 2012 Feb 24.

17.

Population genomics and phylogeography of an Australian dairy factory derived lytic bacteriophage.

Castro-Nallar E, Chen H, Gladman S, Moore SC, Seemann T, Powell IB, Hillier A, Crandall KA, Chandry PS.

Genome Biol Evol. 2012;4(3):382-93. doi: 10.1093/gbe/evs017. Epub 2012 Feb 21.

18.

Improved outcome after peripheral nerve injury in mice with increased levels of endogenous ω-3 polyunsaturated fatty acids.

Gladman SJ, Huang W, Lim SN, Dyall SC, Boddy S, Kang JX, Knight MM, Priestley JV, Michael-Titus AT.

J Neurosci. 2012 Jan 11;32(2):563-71. doi: 10.1523/JNEUROSCI.3371-11.2012.

19.

The effect of mechanical strain or hypoxia on cell death in subpopulations of rat dorsal root ganglion neurons in vitro.

Gladman SJ, Ward RE, Michael-Titus AT, Knight MM, Priestley JV.

Neuroscience. 2010 Dec 1;171(2):577-87. doi: 10.1016/j.neuroscience.2010.07.009. Epub 2010 Jul 29.

PMID:
20674687

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