EdinOmics

Case Studies

A selection of publications highlighting the different groups we collaborate with and the many systems omics can be applied to.

2019

Shotgun proteomics analysis of nanoparticle-synthesising Desulfovibrio alaskensis in response to platinum and palladium

Capeness M, Imrie L, Muhlbauer LF, Le Bihan T, Horsfall LE

Microbiology. 2019 Jul 30. doi: 10.1099/mic.0.000840.

Genome annotation improvements from cross-phyla proteogenomics and time-of-day differences in malaria mosquito proteins using untargeted quantitative proteomics

Imrie L, Le Bihan T, O'Toole A, Hickner PV, Dunn WA, Weise B, Rund SSC

PLoS One. 2019 Jul 29;14(7):e0220225. doi:10.1371/journal.pone.0220225. eCollection 2019.

Trichoplein controls endothelial cell function by regulating autophagy

Martello A, Lauriola A, Mellis D, Parish E, Dawson JC, Imrie L, Vidmar M, Gammoh N, Mitic T, Brittan M, Mills N, O Carragher N, D’Arca D, Caporali A

bioRxiv 2019. doi:10.1101/595702

Quantitative Phosphoproteomic Using Titanium Dioxide Micro-Columns and Label-Free Quantitation

Barrios-Llerena ME, Le Bihan T

Methods Mol Biol. 2019;1977:35-42. doi: 10.1007/978-1-4939-9232-4_4

Time-resolved interaction proteomics of the GIGANTEA protein under diurnal cycles in Arabidopsis

Krahmer J, Goralogia GS, Kubota A, Zardilis A, Johnson RS, Song YH, MacCoss MJ, Le Bihan T, Halliday KJ, Imaizumi T, Millar AJ

FEBS Lett. 2019 Feb;593(3):319-338. doi: 10.1002/1873-3468.13311

 

2018

Redox regulation of pyruvate kinase M2 by cysteine oxidation and S-nitrosation

Mitchell AR, Yuan M, Morgan HP, McNae IW, Blackburn EA, Le Bihan T, Homem RA, Yu M, Loake GJ, Michels PA, Wear MA, Walkinshaw MD

Biochem J. 2018 Oct 31;475(20):3275-3291. doi: 10.1042/BCJ20180556

 

2017

Sumoylation of the Plant Clock Transcription Factor CCA1 Suppresses DNA Binding

Hansen LL, Imrie L, Le Bihan T, van den Burg HA, van Ooijen G

J Biol Rhythms. 2017 Dec;32(6):570-582. doi: 10.1177/0748730417737695

A structurally distinct TGF-β mimic from an intestinal helminth parasite potently induces regulatory T cells

Johnston CJC, Smyth DJ, Kodali RB, White MPJ, Harcus Y, Filbey KJ, Hewitson JP, Hinck CS, Ivens A, Kemter AM, Kildemoes AO, Le Bihan T, Soares DC, Anderton SM, Brenn T, Wigmore SJ, Woodcock HV, Chambers RC, Hinck AP, McSorley HJ, Maizels RM

Nat Commun. 2017 Nov 23;8(1):1741. doi: 10.1038/s41467-017-01886-6

Nucleoredoxin guards against oxidative stress by protecting antioxidant enzymes

Kneeshaw S, Keyani R, Delorme-Hinoux V, Imrie L, Loake GJ, Le Bihan T, Reichheld JP, Spoel SH

Proc Natl Acad Sci U S A. 2017 Jul 19. pii: 201703344. doi: 10.1073/pnas.1703344114

Sex differences in leucocyte telomere length in a free-living mammal

Watson RL, Bird EJ, Underwood S, Wilbourn RV, Fairlie J, Watt K, Salvo-Chirnside E, Pilkington JG, Pemberton JM, McNeilly TN, Froy H, Nussey DH

Mol Ecol. 2017 Jun;26(12):3230-3240. doi: 10.1111/mec.13992

 

2016

Protein Co-Expression Analysis as a Strategy to Complement a Standard Quantitative Proteomics Approach: Case of a Glioblastoma Multiforme Study

Kanonidis EI, Roy MM, Deighton RF, Le Bihan T

PLoS One. 2016 Aug 29;11(8):e0161828. doi: 10.1371/journal.pone.0161828

Data from quantitative label free proteomics analysis of rat spleen

Dudekula K, Le Bihan T

Data Brief. 2016 Jun 4;8:494-500. doi: 10.1016/j.dib.2016.05.058

Identification of S-Nitrosothiols by the Sequential Cysteine Blocking Technique

Homem RA, Le Bihan T, Yu M, Loake GJ

Methods Mol Biol. 2016;1424:163-74. doi: 10.1007/978-1-4939-3600-7_14

Identification of novel pathways linking epithelial-to-mesenchymal transition with resistance to HER2-targeted therapy

Creedon H, Gómez-Cuadrado L, Tarnauskaitė Ž, Balla J, Canel M, MacLeod KG, Serrels B, Fraser C, Unciti-Broceta A, Tracey N, Le Bihan T, Klinowska T, Sims AH, Byron A, Brunton VG

Oncotarget. 2016 Mar 8;7(10):11539-52. doi: 10.18632/oncotarget.7317

Rock geochemistry induces stress and starvation responses in the bacterial proteome

Bryce CC, Le Bihan T, Martin SF, Harrison JP, Bush T, Spears B, Moore A, Leys N, Byloos B, Cockell CS

Environ Microbiol. 2016 Apr;18(4):1110-21. doi: 10.1111/1462-2920.13093

Method Specific Calibration Corrects for DNA Extraction Method Effects on Relative Telomere Length Measurements by Quantitative PCR

Seeker LA, Holland R, Underwood S, Fairlie J, Psifidi A, Ilska JJ, Bagnall A, Whitelaw B, Coffey M, Banos G, Nussey DH

PLoS One. 2016 Oct 10;11(10):e0164046

Lifelong leukocyte telomere dynamics and survival in a free-living mammal

Fairlie J, Holland R, Pilkington JG, Pemberton JM, Harrington L, Nussey DH

Aging Cell. 2016 Feb;15(1):140-8. doi: 10.1111/acel.12417

 

2015

Cell populations can use aneuploidy to survive telomerase insufficiency

Millet C, Ausiannikava D, Le Bihan T, Granneman S, Makovets S

Nat Commun. 2015 Oct 22;6:8664. doi: 10.1038/ncomms9664

Label-free quantitative analysis of the casein kinase 2-responsive phosphoproteome of the marine minimal model species Ostreococcus tauri

Le Bihan T, Hindle M, Martin SF, Barrios-Llerena ME, Krahmer J, Kis K, Millar AJ, van Ooijen G

Proteomics. 2015 Dec;15(23-24):4135-44. doi: 10.1002/pmic.201500086

Sample preparation for phosphoproteomic analysis of circadian time series in Arabidopsis thaliana

Krahmer J, Hindle MM, Martin SF, Le Bihan T, Millar AJ

Methods Enzymol. 2015;551:405-31. doi: 10.1016/bs.mie.2014.10.022

 

2014

Snapshots of pre-rRNA structural flexibility reveal eukaryotic 40S assembly dynamics at nucleotide resolution

Hector RD, Burlacu E, Aitken S, Le Bihan T, Tuijtel M, Zaplatina A, Cook AG, Granneman S

Nucleic Acids Res. 2014 Oct 29;42(19):12138-54. doi: 10.1093/nar/gku815

The reduced kinome of Ostreococcus tauri: core eukaryotic signalling components in a tractable model species

Hindle MM, Martin SF, Noordally ZB, van Ooijen G, Barrios-Llerena ME, Simpson TI, Le Bihan T, Millar AJ

BMC Genomics. 2014 Aug 2;15:640. doi: 10.1186/1471-2164-15-640

The proteomic response in glioblastoma in young patients

Deighton RF, Le Bihan T, Martin SF, Barrios-Llerena ME, Gerth AM, Kerr LE, McCulloch J, Whittle IR

J Neurooncol. 2014 Aug;119(1):79-89. doi: 10.1007/s11060-014-1474-6

Impact of age on the cerebrovascular proteomes of wild-type and Tg-SwDI mice

Searcy JL, Le Bihan T, Salvadores N, McCulloch J, Horsburgh K

PLoS One. 2014 Feb 26;9(2):e89970. doi: 10.1371/journal.pone.0089970

 

2013

Functional analysis of the rodent CK1tau mutation in the circadian clock of a marine unicellular alga

van Ooijen G, Martin SF, Barrios-Llerena ME, Hindle M, Le Bihan T, O'Neill JS, Millar AJ

BMC Cell Biol. 2013 Oct 15;14:46. doi: 10.1186/1471-2121-14-46

Telomeres, a busy platform for cell signaling

Gardano L, Pucci F, Christian L, Le Bihan T, Harrington L

Front Oncol. 2013 Jun 10;3:146. doi: 10.3389/fonc.2013.00146

Photobacterium profundum under pressure: a MS-based label-free quantitative proteomics study

Le Bihan T, Rayner J, Roy MM, Spagnolo L

PLoS One. 2013 May 31;8(5):e60897. doi: 10.1371/journal.pone.0060897

PI3K/Akt1 signalling specifies foregut precursors by generating regionalized extra-cellular matrix

Villegas SN, Rothová M, Barrios-Llerena ME, Pulina M, Hadjantonakis AK, Le Bihan T, Astrof S, Brickman JM

Elife. 2013 Dec 24;2:e00806. doi: 10.7554/eLife.00806

 

2012

Proteome turnover in the green alga Ostreococcus tauri by time course 15N metabolic labeling mass spectrometry

Martin SF, Munagapati VS, Salvo-Chirnside E, Kerr LE, Le Bihan T

J Proteome Res. 2012 Jan 1;11(1):476-86. doi: 10.1021/pr2009302

 

2011

Shotgun proteomic analysis of the unicellular alga Ostreococcus tauri

Le Bihan T, Martin SF, Chirnside ES, van Ooijen G, Barrios-Llerena ME, O'Neill JS, Shliaha PV, Kerr LE, Millar AJ

J Proteomics. 2011 Sep 6;74(10):2060-70. doi: 10.1016/j.jprot.2011.05.028

Circadian clock parameter measurement: characterization of clock transcription factors using surface plasmon resonance

O'Neill JS, van Ooijen G, Le Bihan T, Millar AJ

J Biol Rhythms. 2011 Apr;26(2):91-8. doi: 10.1177/0748730410397465