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Chemotherapy and repeat resection abrogate the prognostic value of neutrophil lymphocyte ratio in colorectal liver metastases.

Hand F, Ryan EJ, Harrington C, Durand M, Maguire D, O'Farrelly C, Hoti E, Geoghegan JG.

HPB (Oxford). 2019 Sep 27. pii: S1365-182X(19)30715-4. doi: 10.1016/j.hpb.2019.09.003. [Epub ahead of print]


Characterising the impact of body composition change during neoadjuvant chemotherapy for pancreatic cancer.

Griffin OM, Duggan SN, Ryan R, McDermott R, Geoghegan J, Conlon KC.

Pancreatology. 2019 Sep;19(6):850-857. doi: 10.1016/j.pan.2019.07.039. Epub 2019 Jul 24.


Liver-Derived TGF-β Maintains the EomeshiTbetlo Phenotype of Liver Resident Natural Killer Cells.

Harmon C, Jameson G, Almuaili D, Houlihan DD, Hoti E, Geoghegan J, Robinson MW, O'Farrelly C.

Front Immunol. 2019 Jul 3;10:1502. doi: 10.3389/fimmu.2019.01502. eCollection 2019.


A multimodality test to guide the management of patients with a pancreatic cyst.

Springer S, Masica DL, Dal Molin M, Douville C, Thoburn CJ, Afsari B, Li L, Cohen JD, Thompson E, Allen PJ, Klimstra DS, Schattner MA, Schmidt CM, Yip-Schneider M, Simpson RE, Fernandez-Del Castillo C, Mino-Kenudson M, Brugge W, Brand RE, Singhi AD, Scarpa A, Lawlor R, Salvia R, Zamboni G, Hong SM, Hwang DW, Jang JY, Kwon W, Swan N, Geoghegan J, Falconi M, Crippa S, Doglioni C, Paulino J, Schulick RD, Edil BH, Park W, Yachida S, Hijioka S, van Hooft J, He J, Weiss MJ, Burkhart R, Makary M, Canto MI, Goggins MG, Ptak J, Dobbyn L, Schaefer J, Sillman N, Popoli M, Klein AP, Tomasetti C, Karchin R, Papadopoulos N, Kinzler KW, Vogelstein B, Wolfgang CL, Hruban RH, Lennon AM.

Sci Transl Med. 2019 Jul 17;11(501). pii: eaav4772. doi: 10.1126/scitranslmed.aav4772.


Host-specialized fibrinogen-binding by a bacterial surface protein promotes biofilm formation and innate immune evasion.

Pickering AC, Vitry P, Prystopiuk V, Garcia B, Höök M, Schoenebeck J, Geoghegan JA, Dufrêne YF, Fitzgerald JR.

PLoS Pathog. 2019 Jun 19;15(6):e1007816. doi: 10.1371/journal.ppat.1007816. eCollection 2019 Jun.


The mutational burden of therapy-related myeloid neoplasms is similar to primary myelodysplastic syndrome but has a distinctive distribution.

Singhal D, Wee LYA, Kutyna MM, Chhetri R, Geoghegan J, Schreiber AW, Feng J, Wang PP, Babic M, Parker WT, Hiwase S, Edwards S, Moore S, Branford S, Kuzmanovic T, Singhal N, Gowda R, Brown AL, Arts P, To LB, Bardy PG, Lewis ID, D'Andrea RJ, Maciejewski JP, Scott HS, Hahn CN, Hiwase DK.

Leukemia. 2019 May 14. doi: 10.1038/s41375-019-0479-8. [Epub ahead of print]


Radiographic appearance of the distal clavicle in relation to the acromion after acromioclavicular joint reconstruction using a braided polyester mesh.

Tulner SAF, Fowler A, Edwards KL, Kumar V, Manning P, Geoghegan JM, Wallace WA.

J Clin Orthop Trauma. 2019 May-Jun;10(3):486-491. doi: 10.1016/j.jcot.2019.01.012. Epub 2019 Jan 15.


Clumping factor B is an important virulence factor during Staphylococcus aureus skin infection and a promising vaccine target.

Lacey KA, Mulcahy ME, Towell AM, Geoghegan JA, McLoughlin RM.

PLoS Pathog. 2019 Apr 22;15(4):e1007713. doi: 10.1371/journal.ppat.1007713. eCollection 2019 Apr.


Clinical and Survival Outcomes Using Percutaneous Cholecystostomy Tube Alone or Subsequent Interval Cholecystectomy to Treat Acute Cholecystitis.

Fleming CA, Ismail M, Kavanagh RG, Heneghan HM, Prichard RS, Geoghegan J, Brophy DP, McDermott EW.

J Gastrointest Surg. 2019 Mar 18. doi: 10.1007/s11605-019-04194-0. [Epub ahead of print]


Cost-effectiveness of cell salvage and donor blood transfusion during caesarean section: results from a randomised controlled trial.

McLoughlin C, Roberts TE, Jackson LJ, Moore P, Wilson M, Hooper R, Allard S, Wrench I, Beresford L, Geoghegan J, Daniels J, Catling S, Clark VA, Ayuk P, Robson S, Gao-Smith F, Hogg M, Lanz D, Dodds J, Khan KS; SALVO study group.

BMJ Open. 2019 Feb 19;9(2):e022352. doi: 10.1136/bmjopen-2018-022352.


High diversity and rapid spatial turnover of integron gene cassettes in soil.

Ghaly TM, Geoghegan JL, Alroy J, Gillings MR.

Environ Microbiol. 2019 May;21(5):1567-1574. doi: 10.1111/1462-2920.14551. Epub 2019 Feb 15.


Fibronectin-binding protein B (FnBPB) from Staphylococcus aureus protects against the antimicrobial activity of histones.

Pietrocola G, Nobile G, Alfeo MJ, Foster TJ, Geoghegan JA, De Filippis V, Speziale P.

J Biol Chem. 2019 Mar 8;294(10):3588-3602. doi: 10.1074/jbc.RA118.005707. Epub 2019 Jan 8.


Lactate-Mediated Acidification of Tumor Microenvironment Induces Apoptosis of Liver-Resident NK Cells in Colorectal Liver Metastasis.

Harmon C, Robinson MW, Hand F, Almuaili D, Mentor K, Houlihan DD, Hoti E, Lynch L, Geoghegan J, O'Farrelly C.

Cancer Immunol Res. 2019 Feb;7(2):335-346. doi: 10.1158/2326-6066.CIR-18-0481. Epub 2018 Dec 18.


Evolutionary Virology at 40.

Geoghegan JL, Holmes EC.

Genetics. 2018 Dec;210(4):1151-1162. doi: 10.1534/genetics.118.301556. Review.


A Comparative Quantitative LC-MS/MS Profiling Analysis of Human Pancreatic Adenocarcinoma, Adjacent-Normal Tissue, and Patient-Derived Tumour Xenografts.

Coleman O, Henry M, O'Neill F, Roche S, Swan N, Boyle L, Murphy J, Meiller J, Conlon NT, Geoghegan J, Conlon KC, Lynch V, Straubinger NL, Straubinger RM, McVey G, Moriarty M, Meleady P, Clynes M.

Proteomes. 2018 Nov 6;6(4). pii: E45. doi: 10.3390/proteomes6040045.


Hidden diversity and evolution of viruses in market fish.

Geoghegan JL, Di Giallonardo F, Cousins K, Shi M, Williamson JE, Holmes EC.

Virus Evol. 2018 Oct 31;4(2):vey031. doi: 10.1093/ve/vey031. eCollection 2018 Jul.


Mobile-Genetic-Element-Encoded Hypertolerance to Copper Protects Staphylococcus aureus from Killing by Host Phagocytes.

Zapotoczna M, Riboldi GP, Moustafa AM, Dickson E, Narechania A, Morrissey JA, Planet PJ, Holden MTG, Waldron KJ, Geoghegan JA.

MBio. 2018 Oct 16;9(5). pii: e00550-18. doi: 10.1128/mBio.00550-18.


The phylogenomics of evolving virus virulence.

Geoghegan JL, Holmes EC.

Nat Rev Genet. 2018 Dec;19(12):756-769. doi: 10.1038/s41576-018-0055-5. Review.


Evolution of Human Respiratory Syncytial Virus (RSV) over Multiple Seasons in New South Wales, Australia.

Di Giallonardo F, Kok J, Fernandez M, Carter I, Geoghegan JL, Dwyer DE, Holmes EC, Eden JS.

Viruses. 2018 Sep 6;10(9). pii: E476. doi: 10.3390/v10090476.


Adhesion of Staphylococcus aureus to Corneocytes from Atopic Dermatitis Patients Is Controlled by Natural Moisturizing Factor Levels.

Feuillie C, Vitry P, McAleer MA, Kezic S, Irvine AD, Geoghegan JA, Dufrêne YF.

MBio. 2018 Aug 14;9(4). pii: e01184-18. doi: 10.1128/mBio.01184-18.


Integrative genomic analysis reveals cancer-associated mutations at diagnosis of CML in patients with high-risk disease.

Branford S, Wang P, Yeung DT, Thomson D, Purins A, Wadham C, Shahrin NH, Marum JE, Nataren N, Parker WT, Geoghegan J, Feng J, Shanmuganathan N, Mueller MC, Dietz C, Stangl D, Donaldson Z, Altamura H, Georgievski J, Braley J, Brown A, Hahn C, Walker I, Kim SH, Choi SY, Park SH, Kim DW, White DL, Yong ASM, Ross DM, Scott HS, Schreiber AW, Hughes TP.

Blood. 2018 Aug 30;132(9):948-961. doi: 10.1182/blood-2018-02-832253. Epub 2018 Jul 2.


Inferring demographic parameters in bacterial genomic data using Bayesian and hybrid phylogenetic methods.

Duchene S, Duchene DA, Geoghegan JL, Dyson ZA, Hawkey J, Holt KE.

BMC Evol Biol. 2018 Jun 19;18(1):95. doi: 10.1186/s12862-018-1210-5.


Mechanomicrobiology: How Mechanical Forces Activate Staphylococcus aureus Adhesion.

Geoghegan JA, Dufrêne YF.

Trends Microbiol. 2018 Aug;26(8):645-648. doi: 10.1016/j.tim.2018.05.004. Epub 2018 Jun 1.


Virological Sampling of Inaccessible Wildlife with Drones.

Geoghegan JL, Pirotta V, Harvey E, Smith A, Buchmann JP, Ostrowski M, Eden JS, Harcourt R, Holmes EC.

Viruses. 2018 Jun 2;10(6). pii: E300. doi: 10.3390/v10060300.


A comparison of methods for estimating substitution rates from ancient DNA sequence data.

Tong KJ, Duchêne DA, Duchêne S, Geoghegan JL, Ho SYW.

BMC Evol Biol. 2018 May 16;18(1):70. doi: 10.1186/s12862-018-1192-3.


Staphylococcus aureus clumping factor A is a force-sensitive molecular switch that activates bacterial adhesion.

Herman-Bausier P, Labate C, Towell AM, Derclaye S, Geoghegan JA, Dufrêne YF.

Proc Natl Acad Sci U S A. 2018 May 22;115(21):5564-5569. doi: 10.1073/pnas.1718104115. Epub 2018 May 7.


The widespread use of topical antimicrobials enriches for resistance in Staphylococcus aureus isolated from patients with atopic dermatitis.

Harkins CP, McAleer MA, Bennett D, McHugh M, Fleury OM, Pettigrew KA, Oravcová K, Parkhill J, Proby CM, Dawe RS, Geoghegan JA, Irvine AD, Holden MTG.

Br J Dermatol. 2018 Oct;179(4):951-958. doi: 10.1111/bjd.16722. Epub 2018 Jul 24.


Depleted polymorphonuclear leukocytes in human metastatic liver reflect an altered immune microenvironment associated with recurrent metastasis.

Hand F, Harmon C, Elliott LA, Caiazza F, Lavelle A, Maguire D, Hoti E, Nolan N, Geoghegan JG, Ryan EJ, O'Farrelly C.

Cancer Immunol Immunother. 2018 Jul;67(7):1041-1052. doi: 10.1007/s00262-018-2149-5. Epub 2018 Mar 23.


A horizontally gene transferred copper resistance locus confers hyper-resistance to antibacterial copper toxicity and enables survival of community acquired methicillin resistant Staphylococcus aureus USA300 in macrophages.

Purves J, Thomas J, Riboldi GP, Zapotoczna M, Tarrant E, Andrew PW, Londoño A, Planet PJ, Geoghegan JA, Waldron KJ, Morrissey JA.

Environ Microbiol. 2018 Apr;20(4):1576-1589. doi: 10.1111/1462-2920.14088. Epub 2018 Mar 26.


Correction: Continental synchronicity of human influenza virus epidemics despite climactic variation.

Geoghegan JL, Saavedra AF, Duchêne S, Sullivan S, Barr I, Holmes EC.

PLoS Pathog. 2018 Feb 7;14(2):e1006903. doi: 10.1371/journal.ppat.1006903. eCollection 2018 Feb.


Multivisceral Resection for Locally Invasive Colorectal Liver Metastases: Outcomes of a Matched Cohort Analysis.

Hand F, Sanabria Mateos R, Durand M, Fennelly D, McDermott R, Maguire D, Geoghegan J, Winter D, Hoti E.

Dig Surg. 2018;35(6):514-519. doi: 10.1159/000485198. Epub 2018 Jan 18.


Extratumoral PD-1 blockade does not perpetuate obesity-associated inflammation in esophageal adenocarcinoma.

Galvin KC, Conroy MJ, Doyle SL, Dunne MR, Fahey R, Foley E, O'Sullivan KE, Doherty DG, Geoghegan JG, Ravi N, O'Farrelly C, Reynolds JV, Lysaght J.

Cancer Lett. 2018 Apr 1;418:230-238. doi: 10.1016/j.canlet.2018.01.039. Epub 2018 Jan 12.


Continental synchronicity of human influenza virus epidemics despite climatic variation.

Geoghegan JL, Saavedra AF, Duchêne S, Sullivan S, Barr I, Holmes EC.

PLoS Pathog. 2018 Jan 11;14(1):e1006780. doi: 10.1371/journal.ppat.1006780. eCollection 2018 Jan. Erratum in: PLoS Pathog. 2018 Feb 7;14 (2):e1006903.


A randomised controlled trial and economic evaluation of intraoperative cell salvage during caesarean section in women at risk of haemorrhage: the SALVO (cell SALVage in Obstetrics) trial.

Khan KS, Moore P, Wilson M, Hooper R, Allard S, Wrench I, Roberts T, McLoughlin C, Beresford L, Geoghegan J, Daniels J, Catling S, Clark VA, Ayuk P, Robson S, Gao-Smith F, Hogg M, Jackson L, Lanz D, Dodds J.

Health Technol Assess. 2018 Jan;22(2):1-88. doi: 10.3310/hta22020.


Cell salvage and donor blood transfusion during cesarean section: A pragmatic, multicentre randomised controlled trial (SALVO).

Khan KS, Moore PAS, Wilson MJ, Hooper R, Allard S, Wrench I, Beresford L, Roberts TE, McLoughlin C, Geoghegan J, Daniels JP, Catling S, Clark VA, Ayuk P, Robson S, Gao-Smith F, Hogg M, Lanz D, Dodds J; SALVO study group.

PLoS Med. 2017 Dec 19;14(12):e1002471. doi: 10.1371/journal.pmed.1002471. eCollection 2017 Dec.


Staphylococcus aureus and Atopic Dermatitis: A Complex and Evolving Relationship.

Geoghegan JA, Irvine AD, Foster TJ.

Trends Microbiol. 2018 Jun;26(6):484-497. doi: 10.1016/j.tim.2017.11.008. Epub 2017 Dec 9. Review.


Force-Induced Strengthening of the Interaction between Staphylococcus aureus Clumping Factor B and Loricrin.

Vitry P, Valotteau C, Feuillie C, Bernard S, Alsteens D, Geoghegan JA, Dufrêne YF.

MBio. 2017 Dec 5;8(6). pii: e01748-17. doi: 10.1128/mBio.01748-17.


DNA Barcoding Reveals Habitual Clonal Dominance of Myeloma Plasma Cells in the Bone Marrow Microenvironment.

Hewett DR, Vandyke K, Lawrence DM, Friend N, Noll JE, Geoghegan JM, Croucher PI, Zannettino ACW.

Neoplasia. 2017 Dec;19(12):972-981. doi: 10.1016/j.neo.2017.09.004. Epub 2017 Nov 5.


Predicting virus emergence amid evolutionary noise.

Geoghegan JL, Holmes EC.

Open Biol. 2017 Oct;7(10). pii: 170189. doi: 10.1098/rsob.170189. Review.


Does neoadjuvant doxorubicin drug-eluting bead transarterial chemoembolization improve survival in patients undergoing liver transplant for hepatocellular carcinoma?

Dorcaratto D, Udupa V, Hogan NM, Brophy DP, McCann JW, Maguire D, Geoghegan J, Cantwell CP, Hoti E.

Diagn Interv Radiol. 2017 Nov-Dec;23(6):441-447. doi: 10.5152/dir.2017.17106.


The Staphylococcus aureus Cell Wall-Anchored Protein Clumping Factor A Is an Important T Cell Antigen.

Lacey KA, Leech JM, Lalor SJ, McCormack N, Geoghegan JA, McLoughlin RM.

Infect Immun. 2017 Nov 17;85(12). pii: e00549-17. doi: 10.1128/IAI.00549-17. Print 2017 Dec.


Chaperone proteins as single component reagents to assess antibody nonspecificity.

Kelly RL, Geoghegan JC, Feldman J, Jain T, Kauke M, Le D, Zhao J, Wittrup KD.

MAbs. 2017 Oct;9(7):1036-1040. doi: 10.1080/19420862.2017.1356529. Epub 2017 Jul 26.


A validation of the Nottingham Clavicle Score: a clavicle, acromioclavicular joint and sternoclavicular joint-specific patient-reported outcome measure.

Charles ER, Kumar V, Blacknall J, Edwards K, Geoghegan JM, Manning PA, Wallace WA.

J Shoulder Elbow Surg. 2017 Oct;26(10):1732-1739. doi: 10.1016/j.jse.2017.03.036. Epub 2017 Jun 7.


Live-Cell Nanoscopy in Antiadhesion Therapy.

Geoghegan JA, Foster TJ, Speziale P, Dufrêne YF.

Trends Microbiol. 2017 Jul;25(7):512-514. doi: 10.1016/j.tim.2017.04.002. Epub 2017 May 8.


Conjugate of an IgG Binding Domain with Botulinum Neurotoxin A Lacking the Acceptor Moiety Targets Its SNARE Protease into TrkA-Expressing Cells When Coupled to Anti-TrkA IgG or Fc-βNGF.

Nugent M, Wang J, Lawrence G, Zurawski T, Geoghegan JA, Dolly JO.

Bioconjug Chem. 2017 Jun 21;28(6):1684-1692. doi: 10.1021/acs.bioconjchem.7b00157. Epub 2017 May 22.


Clumping Factor B Promotes Adherence of Staphylococcus aureus to Corneocytes in Atopic Dermatitis.

Fleury OM, McAleer MA, Feuillie C, Formosa-Dague C, Sansevere E, Bennett DE, Towell AM, McLean WHI, Kezic S, Robinson DA, Fallon PG, Foster TJ, Dufrêne YF, Irvine AD, Geoghegan JA.

Infect Immun. 2017 May 23;85(6). pii: e00994-16. doi: 10.1128/IAI.00994-16. Print 2017 Jun.


Molecular interactions and inhibition of the staphylococcal biofilm-forming protein SdrC.

Feuillie C, Formosa-Dague C, Hays LM, Vervaeck O, Derclaye S, Brennan MP, Foster TJ, Geoghegan JA, Dufrêne YF.

Proc Natl Acad Sci U S A. 2017 Apr 4;114(14):3738-3743. doi: 10.1073/pnas.1616805114. Epub 2017 Mar 20.


Comparative analysis estimates the relative frequencies of co-divergence and cross-species transmission within viral families.

Geoghegan JL, Duchêne S, Holmes EC.

PLoS Pathog. 2017 Feb 8;13(2):e1006215. doi: 10.1371/journal.ppat.1006215. eCollection 2017 Feb.


Multiple Aneurysms and a Transplanted Kidney in Behçet Disease.

Ali O, Nicholl P, Carruthers D, Geoghegan J, Tiwari A.

Vasc Endovascular Surg. 2017 Feb;51(2):108-110. doi: 10.1177/1538574417689982. Epub 2017 Feb 1.


A Therapeutic Uricase with Reduced Immunogenicity Risk and Improved Development Properties.

Nyborg AC, Ward C, Zacco A, Chacko B, Grinberg L, Geoghegan JC, Bean R, Wendeler M, Bartnik F, O'Connor E, Gruia F, Iyer V, Feng H, Roy V, Berge M, Miner JN, Wilson DM, Zhou D, Nicholson S, Wilker C, Wu CY, Wilson S, Jermutus L, Wu H, Owen DA, Osbourn J, Coats S, Baca M.

PLoS One. 2016 Dec 21;11(12):e0167935. doi: 10.1371/journal.pone.0167935. eCollection 2016.

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