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Items: 1 to 50 of 350

1.

Photorhabdus: a tale of contrasting interactions.

Clarke DJ.

Microbiology. 2020 Mar 25. doi: 10.1099/mic.0.000907. [Epub ahead of print]

PMID:
32209172
2.

Interoperable RNA-Seq analysis in the cloud.

Lachmann A, Clarke DJB, Torre D, Xie Z, Ma'ayan A.

Biochim Biophys Acta Gene Regul Mech. 2020 Mar 7:194521. doi: 10.1016/j.bbagrm.2020.194521. [Epub ahead of print] Review.

PMID:
32156561
3.

Mitotic entry upon Topo II catalytic inhibition is controlled by Chk1 and Plk1.

Arroyo M, Cañuelo A, Calahorra J, Hastert FD, Sánchez A, Clarke DJ, Marchal JA.

FEBS J. 2020 Mar 6. doi: 10.1111/febs.15280. [Epub ahead of print]

PMID:
32144855
4.

Annually modelling built-settlements between remotely-sensed observations using relative changes in subnational populations and lights at night.

Nieves JJ, Sorichetta A, Linard C, Bondarenko M, Steele JE, Stevens FR, Gaughan AE, Carioli A, Clarke DJ, Esch T, Tatem AJ.

Comput Environ Urban Syst. 2020 Mar;80:101444. doi: 10.1016/j.compenvurbsys.2019.101444.

5.

Mass spectrometry reveals the assembly pathway of encapsulated ferritins and highlights a dynamic ferroxidase interface.

Ross J, Lambert T, Piergentili C, He D, Waldron KJ, Mackay CL, Marles-Wright J, Clarke DJ.

Chem Commun (Camb). 2020 Mar 21;56(23):3417-3420. doi: 10.1039/c9cc08130e. Epub 2020 Feb 24.

PMID:
32090213
6.

Isotope Depletion Mass Spectrometry (ID-MS) for Accurate Mass Determination and Improved Top-Down Sequence Coverage of Intact Proteins.

Gallagher KJ, Palasser M, Hughes S, Mackay CL, Kilgour DPA, Clarke DJ.

J Am Soc Mass Spectrom. 2020 Mar 4;31(3):700-710. doi: 10.1021/jasms.9b00119. Epub 2020 Feb 11.

PMID:
32003978
7.

The evolution and genomic basis of beetle diversity.

McKenna DD, Shin S, Ahrens D, Balke M, Beza-Beza C, Clarke DJ, Donath A, Escalona HE, Friedrich F, Letsch H, Liu S, Maddison D, Mayer C, Misof B, Murin PJ, Niehuis O, Peters RS, Podsiadlowski L, Pohl H, Scully ED, Yan EV, Zhou X, Ślipiński A, Beutel RG.

Proc Natl Acad Sci U S A. 2019 Dec 3;116(49):24729-24737. doi: 10.1073/pnas.1909655116. Epub 2019 Nov 18.

8.

Topoisomerase II SUMOylation activates a metaphase checkpoint via Haspin and Aurora B kinases.

Pandey N, Keifenheim D, Yoshida MM, Hassebroek VA, Soroka C, Azuma Y, Clarke DJ.

J Cell Biol. 2020 Jan 6;219(1). pii: e201807189. doi: 10.1083/jcb.201807189.

PMID:
31712254
9.

LINCS Data Portal 2.0: next generation access point for perturbation-response signatures.

Stathias V, Turner J, Koleti A, Vidovic D, Cooper D, Fazel-Najafabadi M, Pilarczyk M, Terryn R, Chung C, Umeano A, Clarke DJB, Lachmann A, Evangelista JE, Ma'ayan A, Medvedovic M, Schürer SC.

Nucleic Acids Res. 2020 Jan 8;48(D1):D431-D439. doi: 10.1093/nar/gkz1023.

PMID:
31701147
10.

FAIRshake: Toolkit to Evaluate the FAIRness of Research Digital Resources.

Clarke DJB, Wang L, Jones A, Wojciechowicz ML, Torre D, Jagodnik KM, Jenkins SL, McQuilton P, Flamholz Z, Silverstein MC, Schilder BM, Robasky K, Castillo C, Idaszak R, Ahalt SC, Williams J, Schurer S, Cooper DJ, de Miranda Azevedo R, Klenk JA, Haendel MA, Nedzel J, Avillach P, Shimoyama ME, Harris RM, Gamble M, Poten R, Charbonneau AL, Larkin J, Brown CT, Bonazzi VR, Dumontier MJ, Sansone SA, Ma'ayan A.

Cell Syst. 2019 Nov 27;9(5):417-421. doi: 10.1016/j.cels.2019.09.011. Epub 2019 Oct 30.

PMID:
31677972
11.

Supporting carers of stroke survivors to reduce carer burden: development of the Preparing is Caring intervention using Intervention Mapping.

Hall JF, Crocker TF, Clarke DJ, Forster A.

BMC Public Health. 2019 Oct 29;19(1):1408. doi: 10.1186/s12889-019-7615-2.

12.

Role of the Photorhabdus Dam methyltransferase during interactions with its invertebrate hosts.

Payelleville A, Blackburn D, Lanois A, Pagès S, Cambon MC, Ginibre N, Clarke DJ, Givaudan A, Brillard J.

PLoS One. 2019 Oct 9;14(10):e0212655. doi: 10.1371/journal.pone.0212655. eCollection 2019.

13.

Nigral overexpression of α-synuclein in a rat Parkinson's disease model indicates alterations in the enteric nervous system and the gut microbiome.

O'Donovan SM, Crowley EK, Brown JR, O'Sullivan O, O'Leary OF, Timmons S, Nolan YM, Clarke DJ, Hyland NP, Joyce SA, Sullivan AM, O'Neill C.

Neurogastroenterol Motil. 2020 Jan;32(1):e13726. doi: 10.1111/nmo.13726. Epub 2019 Oct 2.

PMID:
31576631
14.

The pyrenoidal linker protein EPYC1 phase separates with hybrid Arabidopsis-Chlamydomonas Rubisco through interactions with the algal Rubisco small subunit.

Atkinson N, Velanis CN, Wunder T, Clarke DJ, Mueller-Cajar O, McCormick AJ.

J Exp Bot. 2019 Oct 15;70(19):5271-5285. doi: 10.1093/jxb/erz275.

15.

Native ion mobility mass spectrometry reveals that small organic acid fragments impart gas-phase stability to carbonic anhydrase II.

Veale CGL, Mateos Jimenez M, Mackay CL, Clarke DJ.

Rapid Commun Mass Spectrom. 2020 Jan 30;34(2):e8570. doi: 10.1002/rcm.8570.

PMID:
31479545
16.

Catalytic Knockdown of miR-21 by Artificial Ribonuclease: Biological Performance in Tumor Model.

Patutina OA, Miroshnichenko SK, Mironova NL, Sen'kova AV, Bichenkova EV, Clarke DJ, Vlassov VV, Zenkova MA.

Front Pharmacol. 2019 Aug 8;10:879. doi: 10.3389/fphar.2019.00879. eCollection 2019.

17.

Exploring adults' experiences of sedentary behaviour and participation in non-workplace interventions designed to reduce sedentary behaviour: a thematic synthesis of qualitative studies.

Rawlings GH, Williams RK, Clarke DJ, English C, Fitzsimons C, Holloway I, Lawton R, Mead G, Patel A, Forster A.

BMC Public Health. 2019 Aug 13;19(1):1099. doi: 10.1186/s12889-019-7365-1. Review.

18.

Erratum: Use of isotopically labeled substrates reveals kinetic differences between human and bacterial serine palmitoyltransferase.

Harrison PJ, Gable K, Somashekarappa N, Kelly V, Clarke DJ, Naismith JH, Dunn TM, Campopiano DJ.

J Lipid Res. 2019 Aug;60(8):1489. doi: 10.1194/jlr.ERR119000228. No abstract available.

19.

Untargeted Metabolite Mapping in 3D Cell Culture Models Using High Spectral Resolution FT-ICR Mass Spectrometry Imaging.

Tucker LH, Hamm GR, Sargeant RJE, Goodwin RJA, Mackay CL, Campbell CJ, Clarke DJ.

Anal Chem. 2019 Aug 6;91(15):9522-9529. doi: 10.1021/acs.analchem.9b00661. Epub 2019 Jul 16.

PMID:
31265253
20.

Tonantzin, a New Genus of Bess Beetle (Coleoptera, Passalidae) from a Montane Subtropical Forest in Central Mexico, with a Review of the Taxonomic Significance of the Mesofrontal Structure in Proculini.

Beza-Beza CF, Jiménez-Ferbans L, Clarke DJ, Reyes-Castillo P, McKenna DD.

Insects. 2019 Jun 28;10(7). pii: E188. doi: 10.3390/insects10070188.

21.

Sequence-Specific Detection of Unlabeled Nucleic Acid Biomarkers Using a "One-Pot" 3D Molecular Sensor.

Yousaf S, King PJS, Miller AF, Saiani A, Clarke DJ, Trivoluzzi LT, Aojula HS, Bichenkova EV.

Anal Chem. 2019 Aug 6;91(15):10016-10025. doi: 10.1021/acs.analchem.9b01841. Epub 2019 Jul 11.

22.

Microglial cell hyper-ramification and neuronal dendritic spine loss in the hippocampus and medial prefrontal cortex in a mouse model of PTSD.

Smith KL, Kassem MS, Clarke DJ, Kuligowski MP, Bedoya-Pérez MA, Todd SM, Lagopoulos J, Bennett MR, Arnold JC.

Brain Behav Immun. 2019 Aug;80:889-899. doi: 10.1016/j.bbi.2019.05.042. Epub 2019 May 31.

PMID:
31158497
23.

MCPH1 is essential for cellular adaptation to the G2-phase decatenation checkpoint.

Arroyo M, Kuriyama R, Guerrero I, Keifenheim D, Cañuelo A, Calahorra J, Sánchez A, Clarke DJ, Marchal JA.

FASEB J. 2019 Jul;33(7):8363-8374. doi: 10.1096/fj.201802009RR. Epub 2019 Apr 9.

PMID:
30964711
24.

Microbial Population Changes in Decaying Ascophyllum nodosum Result in Macroalgal-Polysaccharide-Degrading Bacteria with Potential Applicability in Enzyme-Assisted Extraction Technologies.

Ihua MW, Guihéneuf F, Mohammed H, Margassery LM, Jackson SA, Stengel DB, Clarke DJ, Dobson ADW.

Mar Drugs. 2019 Mar 29;17(4). pii: E200. doi: 10.3390/md17040200.

25.

High resolution fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) for the characterisation of enzymatic processing of commercial lignin.

Echavarri-Bravo V, Tinzl M, Kew W, Cruickshank F, Logan Mackay C, Clarke DJ, Horsfall LE.

N Biotechnol. 2019 Sep 25;52:1-8. doi: 10.1016/j.nbt.2019.03.001. Epub 2019 Mar 25.

PMID:
30922999
26.

Iso-propyl stilbene: a life cycle signal?

Hapeshi A, Benarroch JM, Clarke DJ, Waterfield NR.

Microbiology. 2019 May;165(5):516-526. doi: 10.1099/mic.0.000790. Epub 2019 Mar 18.

PMID:
30882293
27.

Conservation of the structural and functional architecture of encapsulated ferritins in bacteria and archaea.

He D, Piergentili C, Ross J, Tarrant E, Tuck LR, Mackay CL, McIver Z, Waldron KJ, Clarke DJ, Marles-Wright J.

Biochem J. 2019 Mar 22;476(6):975-989. doi: 10.1042/BCJ20180922.

PMID:
30837306
28.

Use of isotopically labeled substrates reveals kinetic differences between human and bacterial serine palmitoyltransferase.

Harrison PJ, Gable K, Somashekarappa N, Kelly V, Clarke DJ, Naismith JH, Dunn TM, Campopiano DJ.

J Lipid Res. 2019 May;60(5):953-962. doi: 10.1194/jlr.M089367. Epub 2019 Feb 21. Erratum in: J Lipid Res. 2019 Aug;60(8):1489.

PMID:
30792183
29.

A specialized prey-capture apparatus in mid-Cretaceous rove beetles.

Cai C, Clarke DJ, Yin Z, Fu Y, Huang D.

Curr Biol. 2019 Feb 18;29(4):R116-R117. doi: 10.1016/j.cub.2019.01.002.

30.

Cell cycle regulation of condensin Smc4.

Wei-Shan H, Amit VC, Clarke DJ.

Oncotarget. 2019 Jan 8;10(3):263-276. doi: 10.18632/oncotarget.26467. eCollection 2019 Jan 8.

31.

The Glycine Lipids of Bacteroides thetaiotaomicron Are Important for Fitness during Growth In Vivo and In Vitro.

Lynch A, Tammireddy SR, Doherty MK, Whitfield PD, Clarke DJ.

Appl Environ Microbiol. 2019 May 2;85(10). pii: e02157-18. doi: 10.1128/AEM.02157-18. Print 2019 May 15.

32.

Complementary Ionization Techniques for the Analysis of Scotch Whisky by High Resolution Mass Spectrometry.

Kew W, Mackay CL, Goodall I, Clarke DJ, Uhrín D.

Anal Chem. 2018 Oct 2;90(19):11265-11272. doi: 10.1021/acs.analchem.8b01446. Epub 2018 Sep 18.

33.

HIV Education: Reflections on the Past, Priorities for the Future.

Aggleton P, Bhana D, Clarke DJ, Crewe M, Race K, Yankah E.

AIDS Educ Prev. 2018 Jun;30(3):254-266. doi: 10.1521/aeap.2018.30.3.254.

PMID:
29969311
34.

Nrg1 deficiency modulates the behavioural effects of prenatal stress in mice.

Clarke DJ, Sarkissian L, Todd SM, Suraev AS, Bahceci D, Brzozowska N, Arnold JC.

Prog Neuropsychopharmacol Biol Psychiatry. 2019 Jan 10;88:86-95. doi: 10.1016/j.pnpbp.2018.06.013. Epub 2018 Jun 30.

PMID:
29964074
35.

MALDI Matrix Application Utilizing a Modified 3D Printer for Accessible High Resolution Mass Spectrometry Imaging.

Tucker LH, Conde-González A, Cobice D, Hamm GR, Goodwin RJA, Campbell CJ, Clarke DJ, Mackay CL.

Anal Chem. 2018 Aug 7;90(15):8742-8749. doi: 10.1021/acs.analchem.8b00670. Epub 2018 Jul 27.

PMID:
29863333
36.

eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks.

Clarke DJB, Kuleshov MV, Schilder BM, Torre D, Duffy ME, Keenan AB, Lachmann A, Feldmann AS, Gundersen GW, Silverstein MC, Wang Z, Ma'ayan A.

Nucleic Acids Res. 2018 Jul 2;46(W1):W171-W179. doi: 10.1093/nar/gky458.

37.

Why do stroke survivors not receive recommended amounts of active therapy? Findings from the ReAcT study, a mixed-methods case-study evaluation in eight stroke units.

Clarke DJ, Burton LJ, Tyson SF, Rodgers H, Drummond A, Palmer R, Hoffman A, Prescott M, Tyrrell P, Brkic L, Grenfell K, Forster A.

Clin Rehabil. 2018 Aug;32(8):1119-1132. doi: 10.1177/0269215518765329. Epub 2018 Mar 27.

38.

Neuregulin 1 Deficiency Modulates Adolescent Stress-Induced Dendritic Spine Loss in a Brain Region-Specific Manner and Increases Complement 4 Expression in the Hippocampus.

Clarke DJ, Chohan TW, Kassem MS, Smith KL, Chesworth R, Karl T, Kuligowski MP, Fok SY, Bennett MR, Arnold JC.

Schizophr Bull. 2019 Mar 7;45(2):339-349. doi: 10.1093/schbul/sby029.

39.

Phylogenomic Data Yield New and Robust Insights into the Phylogeny and Evolution of Weevils.

Shin S, Clarke DJ, Lemmon AR, Moriarty Lemmon E, Aitken AL, Haddad S, Farrell BD, Marvaldi AE, Oberprieler RG, McKenna DD.

Mol Biol Evol. 2018 Apr 1;35(4):823-836. doi: 10.1093/molbev/msx324. Erratum in: Mol Biol Evol. 2018 Jul 1;35(7):1821.

PMID:
29294021
40.

Molecular phylogeny of Macrosiphini (Hemiptera: Aphididae): An evolutionary hypothesis for the Pterocomma-group habitat adaptation.

Choi H, Shin S, Jung S, Clarke DJ, Lee S.

Mol Phylogenet Evol. 2018 Apr;121:12-22. doi: 10.1016/j.ympev.2017.12.021. Epub 2017 Dec 15.

PMID:
29253532
41.

Monitoring the DNA Topoisomerase II Checkpoint in Saccharomyces cerevisiae.

Furniss K, Vas ACJ, Lane AB, Clarke DJ.

Methods Mol Biol. 2018;1703:217-240. doi: 10.1007/978-1-4939-7459-7_16.

PMID:
29177745
42.

Analyzing Mitotic Chromosome Structural Defects After Topoisomerase II Inhibition or Mutation.

Giménez-Abián JF, Lane AB, Clarke DJ.

Methods Mol Biol. 2018;1703:191-215. doi: 10.1007/978-1-4939-7459-7_15.

PMID:
29177744
43.

Non-Catalytic Roles of the Topoisomerase IIα C-Terminal Domain.

Clarke DJ, Azuma Y.

Int J Mol Sci. 2017 Nov 17;18(11). pii: E2438. doi: 10.3390/ijms18112438. Review.

44.

Disciplinary power and the process of training informal carers on stroke units.

Sadler E, Hawkins R, Clarke DJ, Godfrey M, Dickerson J, McKevitt C.

Sociol Health Illn. 2018 Jan;40(1):100-114. doi: 10.1111/1467-9566.12625. Epub 2017 Oct 26.

45.

The Bacteroidales produce an N-acylated derivative of glycine with both cholesterol-solubilising and hemolytic activity.

Lynch A, Crowley E, Casey E, Cano R, Shanahan R, McGlacken G, Marchesi JR, Clarke DJ.

Sci Rep. 2017 Oct 16;7(1):13270. doi: 10.1038/s41598-017-13774-6.

46.

MCPH1, mutated in primary microcephaly, is required for efficient chromosome alignment during mitosis.

Arroyo M, Kuriyama R, Trimborn M, Keifenheim D, Cañuelo A, Sánchez A, Clarke DJ, Marchal JA.

Sci Rep. 2017 Oct 12;7(1):13019. doi: 10.1038/s41598-017-12793-7.

47.

Genetic deletion of P-glycoprotein alters stress responsivity and increases depression-like behavior, social withdrawal and microglial activation in the hippocampus of female mice.

Brzozowska NI, Smith KL, Zhou C, Waters PM, Cavalcante LM, Abelev SV, Kuligowski M, Clarke DJ, Todd SM, Arnold JC.

Brain Behav Immun. 2017 Oct;65:251-261. doi: 10.1016/j.bbi.2017.05.008. Epub 2017 May 10.

PMID:
28502879
48.

HexA is a versatile regulator involved in the control of phenotypic heterogeneity of Photorhabdus luminescens.

Langer A, Moldovan A, Harmath C, Joyce SA, Clarke DJ, Heermann R.

PLoS One. 2017 Apr 27;12(4):e0176535. doi: 10.1371/journal.pone.0176535. eCollection 2017.

49.

Light losses from scattering in luminescent solar concentrator waveguides.

Breukers RD, Smith GJ, Stirrat HL, Swanson AJ, Smith TA, Ghiggino KP, Raymond SG, Winch NM, Clarke DJ, Kay AJ.

Appl Opt. 2017 Apr 1;56(10):2630-2635. doi: 10.1364/AO.56.002630.

PMID:
28375222
50.

Cell surface damage activates a cell cycle checkpoint (comment on DOI: 10.1002/bies.201600210).

Clarke DJ.

Bioessays. 2017 Apr;39(4). doi: 10.1002/bies.201700022. Epub 2017 Mar 7. No abstract available.

PMID:
28266055

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