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Items: 1 to 50 of 177

1.

Meta-analysis of prognostic factors for patients with colorectal peritoneal metastasis undergoing cytoreductive surgery and heated intraperitoneal chemotherapy.

Hallam S, Tyler R, Price M, Beggs A, Youssef H.

BJS Open. 2019 Jun 27;3(5):585-594. doi: 10.1002/bjs5.50179. eCollection 2019 Oct. Review.

2.

Prospecting for α-N-acetylgalactosaminidases yields a new class of GH31 O-glycanase.

Rahfeld P, Wardman JF, Mehr K, Huff D, Morgan-Lang C, Chen HM, Hallam SJ, Withers SG.

J Biol Chem. 2019 Sep 17. pii: jbc.RA119.010628. doi: 10.1074/jbc.RA119.010628. [Epub ahead of print]

3.

An enzymatic pathway in the human gut microbiome that converts A to universal O type blood.

Rahfeld P, Sim L, Moon H, Constantinescu I, Morgan-Lang C, Hallam SJ, Kizhakkedathu JN, Withers SG.

Nat Microbiol. 2019 Sep;4(9):1475-1485. doi: 10.1038/s41564-019-0469-7. Epub 2019 Jun 10.

PMID:
31182795
4.

High-Throughput Recovery and Characterization of Metagenome-Derived Glycoside Hydrolase-Containing Clones as a Resource for Biocatalyst Development.

Armstrong Z, Liu F, Kheirandish S, Chen HM, Mewis K, Duo T, Morgan-Lang C, Hallam SJ, Withers SG.

mSystems. 2019 Jun 4;4(4). pii: e00082-19. doi: 10.1128/mSystems.00082-19.

5.

Development and Application of a High-Throughput Functional Metagenomic Screen for Glycoside Phosphorylases.

Macdonald SS, Armstrong Z, Morgan-Lang C, Osowiecka M, Robinson K, Hallam SJ, Withers SG.

Cell Chem Biol. 2019 Jul 18;26(7):1001-1012.e5. doi: 10.1016/j.chembiol.2019.03.017. Epub 2019 May 9.

PMID:
31080075
6.

Consent insufficient for data release-Response.

Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I.

Science. 2019 May 3;364(6439):446. doi: 10.1126/science.aax7509. No abstract available.

PMID:
31048484
7.

Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea.

Borrel G, Adam PS, McKay LJ, Chen LX, Sierra-García IN, Sieber CMK, Letourneur Q, Ghozlane A, Andersen GL, Li WJ, Hallam SJ, Muyzer G, de Oliveira VM, Inskeep WP, Banfield JF, Gribaldo S.

Nat Microbiol. 2019 Apr;4(4):603-613. doi: 10.1038/s41564-019-0363-3. Epub 2019 Mar 4.

8.

Ocean precursors to the extreme Atlantic 2017 hurricane season.

Hallam S, Marsh R, Josey SA, Hyder P, Moat B, Hirschi JJ.

Nat Commun. 2019 Feb 22;10(1):896. doi: 10.1038/s41467-019-08496-4.

9.

Toward unrestricted use of public genomic data.

Amann RI, Baichoo S, Blencowe BJ, Bork P, Borodovsky M, Brooksbank C, Chain PSG, Colwell RR, Daffonchio DG, Danchin A, de Lorenzo V, Dorrestein PC, Finn RD, Fraser CM, Gilbert JA, Hallam SJ, Hugenholtz P, Ioannidis JPA, Jansson JK, Kim JF, Klenk HP, Klotz MG, Knight R, Konstantinidis KT, Kyrpides NC, Mason CE, McHardy AC, Meyer F, Ouzounis CA, Patrinos AAN, Podar M, Pollard KS, Ravel J, Muñoz AR, Roberts RJ, Rosselló-Móra R, Sansone SA, Schloss PD, Schriml LM, Setubal JC, Sorek R, Stevens RL, Tiedje JM, Turjanski A, Tyson GW, Ussery DW, Weinstock GM, White O, Whitman WB, Xenarios I.

Science. 2019 Jan 25;363(6425):350-352. doi: 10.1126/science.aaw1280. No abstract available.

10.

Author Correction: A compendium of geochemical information from the Saanich Inlet water column.

Torres-Beltrán M, Hawley AK, Capelle D, Zaikova E, Walsh DA, Mueller A, Scofield M, Payne C, Pakhomova L, Kheirandish S, Finke J, Bhatia M, Shevchuk O, Gies EA, Fairley D, Michiels C, Suttle CA, Whitney F, Crowe SA, Tortell PD, Hallam SJ.

Sci Data. 2019 Jan 15;6(1):1. doi: 10.1038/s41597-018-0005-2.

11.

Seasonal and ecohydrological regulation of active microbial populations involved in DOC, CO2, and CH4 fluxes in temperate rainforest soil.

Levy-Booth DJ, Giesbrecht IJW, Kellogg CTE, Heger TJ, D'Amore DV, Keeling PJ, Hallam SJ, Mohn WW.

ISME J. 2019 Apr;13(4):950-963. doi: 10.1038/s41396-018-0334-3. Epub 2018 Dec 11.

12.

Recovering cellular biomass from fluids using chemical flocculation.

Kenward PA, Simister RL, Morgan-Lang C, Finke N, Sturm A, Hallam SJ, Crowe SA.

Environ Microbiol Rep. 2018 Dec;10(6):686-694. doi: 10.1111/1758-2229.12690. Epub 2018 Oct 16.

PMID:
30230256
13.

Review of Mammarenavirus Biology and Replication.

Hallam SJ, Koma T, Maruyama J, Paessler S.

Front Microbiol. 2018 Aug 3;9:1751. doi: 10.3389/fmicb.2018.01751. eCollection 2018.

14.

Microbial and geochemical controls on waste rock weathering and drainage quality.

Blackmore S, Vriens B, Sorensen M, Power IM, Smith L, Hallam SJ, Mayer KU, Beckie RD.

Sci Total Environ. 2018 Nov 1;640-641:1004-1014. doi: 10.1016/j.scitotenv.2018.05.374. Epub 2018 Jun 5.

PMID:
30021267
15.

Metagenomics reveals functional synergy and novel polysaccharide utilization loci in the Castor canadensis fecal microbiome.

Armstrong Z, Mewis K, Liu F, Morgan-Lang C, Scofield M, Durno E, Chen HM, Mehr K, Withers SG, Hallam SJ.

ISME J. 2018 Nov;12(11):2757-2769. doi: 10.1038/s41396-018-0215-9. Epub 2018 Jul 16.

16.

A systematic review of local excision followed by adjuvant therapy in early rectal cancer: are pT1 tumours the limit?

Cutting JE, Hallam SE, Thomas MG, Messenger DE.

Colorectal Dis. 2018 Oct;20(10):854-863. doi: 10.1111/codi.14340. Epub 2018 Aug 1. Review.

PMID:
29992729
17.

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2018 Jul 6;36(7):660. doi: 10.1038/nbt0718-660a. No abstract available.

PMID:
29979671
18.

Compliance with enhanced recovery protocols in elderly patients undergoing colorectal resection.

Hallam S, Rickard F, Reeves N, Messenger D, Shabbir J.

Ann R Coll Surg Engl. 2018 Sep;100(7):570-579. doi: 10.1308/rcsann.2018.0102. Epub 2018 Jun 18.

19.

Baseline mapping of Lassa fever virology, epidemiology and vaccine research and development.

Hallam HJ, Hallam S, Rodriguez SE, Barrett ADT, Beasley DWC, Chua A, Ksiazek TG, Milligan GN, Sathiyamoorthy V, Reece LM.

NPJ Vaccines. 2018 Mar 20;3:11. doi: 10.1038/s41541-018-0049-5. eCollection 2018. Review.

20.

Hartmann's procedure, reversal and rate of stoma-free survival.

Hallam S, Mothe BS, Tirumulaju R.

Ann R Coll Surg Engl. 2018 Apr;100(4):301-307. doi: 10.1308/rcsann.2018.0006. Epub 2018 Feb 27.

21.

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2018 Feb 6;36(2):196. doi: 10.1038/nbt0218-196a. No abstract available.

22.

Zika virus infection elicits auto-antibodies to C1q.

Koma T, Veljkovic V, Anderson DE, Wang LF, Rossi SL, Shan C, Shi PY, Beasley DW, Bukreyeva N, Smith JN, Hallam S, Huang C, von Messling V, Paessler S.

Sci Rep. 2018 Jan 30;8(1):1882. doi: 10.1038/s41598-018-20185-8.

23.

Metagenomes Reveal Global Distribution of Bacterial Steroid Catabolism in Natural, Engineered, and Host Environments.

Holert J, Cardenas E, Bergstrand LH, Zaikova E, Hahn AS, Hallam SJ, Mohn WW.

MBio. 2018 Jan 30;9(1). pii: e02345-17. doi: 10.1128/mBio.02345-17.

24.

Structural and mechanistic analysis of a β-glycoside phosphorylase identified by screening a metagenomic library.

Macdonald SS, Patel A, Larmour VLC, Morgan-Lang C, Hallam SJ, Mark BL, Withers SG.

J Biol Chem. 2018 Mar 2;293(9):3451-3467. doi: 10.1074/jbc.RA117.000948. Epub 2018 Jan 9.

25.

An Improved Whole-Cell Biosensor for the Discovery of Lignin-Transforming Enzymes in Functional Metagenomic Screens.

Ho JCH, Pawar SV, Hallam SJ, Yadav VG.

ACS Synth Biol. 2018 Feb 16;7(2):392-398. doi: 10.1021/acssynbio.7b00412. Epub 2017 Dec 4.

PMID:
29182267
26.

Major role of nitrite-oxidizing bacteria in dark ocean carbon fixation.

Pachiadaki MG, Sintes E, Bergauer K, Brown JM, Record NR, Swan BK, Mathyer ME, Hallam SJ, Lopez-Garcia P, Takaki Y, Nunoura T, Woyke T, Herndl GJ, Stepanauskas R.

Science. 2017 Nov 24;358(6366):1046-1051. doi: 10.1126/science.aan8260.

PMID:
29170234
27.

Diverse Marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients.

Hawley AK, Nobu MK, Wright JJ, Durno WE, Morgan-Lang C, Sage B, Schwientek P, Swan BK, Rinke C, Torres-Beltrán M, Mewis K, Liu WT, Stepanauskas R, Woyke T, Hallam SJ.

Nat Commun. 2017 Nov 15;8(1):1507. doi: 10.1038/s41467-017-01376-9.

28.

A compendium of geochemical information from the Saanich Inlet water column.

Torres-Beltrán M, Hawley AK, Capelle D, Zaikova E, Walsh DA, Mueller A, Scofield M, Payne C, Pakhomova L, Kheirandish S, Finke J, Bhatia M, Shevchuk O, Gies EA, Fairley D, Michiels C, Suttle CA, Whitney F, Crowe SA, Tortell PD, Hallam SJ.

Sci Data. 2017 Oct 31;4:170159. doi: 10.1038/sdata.2017.159. Erratum in: Sci Data. 2019 Jan 15;6(1):1.

29.

Monitoring microbial responses to ocean deoxygenation in a model oxygen minimum zone.

Hallam SJ, Torres-Beltrán M, Hawley AK.

Sci Data. 2017 Oct 31;4:170158. doi: 10.1038/sdata.2017.158.

30.

A compendium of multi-omic sequence information from the Saanich Inlet water column.

Hawley AK, Torres-Beltrán M, Zaikova E, Walsh DA, Mueller A, Scofield M, Kheirandish S, Payne C, Pakhomova L, Bhatia M, Shevchuk O, Gies EA, Fairley D, Malfatti SA, Norbeck AD, Brewer HM, Pasa-Tolic L, Del Rio TG, Suttle CA, Tringe S, Hallam SJ.

Sci Data. 2017 Oct 31;4:170160. doi: 10.1038/sdata.2017.160.

31.

Single cell genomics of uncultured marine alveolates shows paraphyly of basal dinoflagellates.

Strassert JFH, Karnkowska A, Hehenberger E, Del Campo J, Kolisko M, Okamoto N, Burki F, Janouškovec J, Poirier C, Leonard G, Hallam SJ, Richards TA, Worden AZ, Santoro AE, Keeling PJ.

ISME J. 2018 Jan;12(1):304-308. doi: 10.1038/ismej.2017.167. Epub 2017 Oct 10.

32.

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2017 Aug 8;35(8):725-731. doi: 10.1038/nbt.3893. Erratum in: Nat Biotechnol. 2018 Feb 6;36(2):196. Nat Biotechnol. 2018 Jul 6;36(7):660.

33.

A metagenomic survey of forest soil microbial communities more than a decade after timber harvesting.

Wilhelm RC, Cardenas E, Leung H, Maas K, Hartmann M, Hahn A, Hallam S, Mohn WW.

Sci Data. 2017 Jul 25;4:170092. doi: 10.1038/sdata.2017.92. eCollection 2017.

34.

Nutrient Acquisition and the Metabolic Potential of Photoferrotrophic Chlorobi.

Thompson KJ, Simister RL, Hahn AS, Hallam SJ, Crowe SA.

Front Microbiol. 2017 Jul 6;8:1212. doi: 10.3389/fmicb.2017.01212. eCollection 2017.

35.

Unexpected genomic features in widespread intracellular bacteria: evidence for motility of marine chlamydiae.

Collingro A, Köstlbacher S, Mussmann M, Stepanauskas R, Hallam SJ, Horn M.

ISME J. 2017 Oct;11(10):2334-2344. doi: 10.1038/ismej.2017.95. Epub 2017 Jun 23.

36.

Intravascular large B-cell lymphoma presenting as a pituitary mass with bilateral adrenal enlargement and haemophagocytic lymphohistiocytosis.

Hussain S, Hallam S, Beltran L, Haroon A, Majumdar K, Shamash J, Sivapackianathan R, Drake W.

Br J Haematol. 2018 Jun;181(6):851-852. doi: 10.1111/bjh.14715. Epub 2017 Apr 25. No abstract available.

PMID:
28439895
37.

A geographically-diverse collection of 418 human gut microbiome pathway genome databases.

Hahn AS, Altman T, Konwar KM, Hanson NW, Kim D, Relman DA, Dill DL, Hallam SJ.

Sci Data. 2017 Apr 11;4:170035. doi: 10.1038/sdata.2017.35.

38.

Draft Genome Sequence of the Pelagic Photoferrotroph Chlorobium phaeoferrooxidans.

Crowe SA, Hahn AS, Morgan-Lang C, Thompson KJ, Simister RL, Llirós M, Hirst M, Hallam SJ.

Genome Announc. 2017 Mar 30;5(13). pii: e01584-16. doi: 10.1128/genomeA.01584-16.

39.

Can active music making promote health and well-being in older citizens? Findings of the music for life project.

Hallam S, Creech A.

London J Prim Care (Abingdon). 2016 Mar 11;8(2):21-25. doi: 10.1080/17571472.2016.1152099. eCollection 2016.

40.

IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses.

Paez-Espino D, Chen IA, Palaniappan K, Ratner A, Chu K, Szeto E, Pillay M, Huang J, Markowitz VM, Nielsen T, Huntemann M, K Reddy TB, Pavlopoulos GA, Sullivan MB, Campbell BJ, Chen F, McMahon K, Hallam SJ, Denef V, Cavicchioli R, Caffrey SM, Streit WR, Webster J, Handley KM, Salekdeh GH, Tsesmetzis N, Setubal JC, Pope PB, Liu WT, Rivers AR, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2017 Jan 4;45(D1):D457-D465. doi: 10.1093/nar/gkw1030. Epub 2016 Oct 30.

41.

Integrating biogeochemistry with multiomic sequence information in a model oxygen minimum zone.

Louca S, Hawley AK, Katsev S, Torres-Beltran M, Bhatia MP, Kheirandish S, Michiels CC, Capelle D, Lavik G, Doebeli M, Crowe SA, Hallam SJ.

Proc Natl Acad Sci U S A. 2016 Oct 4;113(40):E5925-E5933. Epub 2016 Sep 21.

42.

A Systematic Review of Local Excision After Neoadjuvant Therapy for Rectal Cancer: Are ypT0 Tumors the Limit?

Hallam S, Messenger DE, Thomas MG.

Dis Colon Rectum. 2016 Oct;59(10):984-97. doi: 10.1097/DCR.0000000000000613. Review.

PMID:
27602930
43.

Ammonium and nitrite oxidation at nanomolar oxygen concentrations in oxygen minimum zone waters.

Bristow LA, Dalsgaard T, Tiano L, Mills DB, Bertagnolli AD, Wright JJ, Hallam SJ, Ulloa O, Canfield DE, Revsbech NP, Thamdrup B.

Proc Natl Acad Sci U S A. 2016 Sep 20;113(38):10601-6. doi: 10.1073/pnas.1600359113. Epub 2016 Sep 6.

44.

The Spectrum of Clinical Utilities in Molecular Pathology Testing Procedures for Inherited Conditions and Cancer: A Report of the Association for Molecular Pathology.

Joseph L, Cankovic M, Caughron S, Chandra P, Emmadi R, Hagenkord J, Hallam S, Jewell KE, Klein RD, Pratt VM, Rothberg PG, Temple-Smolkin RL, Lyon E.

J Mol Diagn. 2016 Sep;18(5):605-619. doi: 10.1016/j.jmoldx.2016.05.007. Epub 2016 Aug 16. Review.

45.

LCA*: an entropy-based measure for taxonomic assignment within assembled metagenomes.

Hanson NW, Konwar KM, Hallam SJ.

Bioinformatics. 2016 Dec 1;32(23):3535-3542. Epub 2016 Aug 11.

46.

Editorial overview: Remapping the body of the world: Exploring interactions at the interface of microbial ecology, biological engineering and information science.

Hallam SJ, Vásquez M.

Curr Opin Microbiol. 2016 Jun;31:v-vii. doi: 10.1016/j.mib.2016.05.001. Epub 2016 May 16. No abstract available.

PMID:
27199093
47.

The information science of microbial ecology.

Hahn AS, Konwar KM, Louca S, Hanson NW, Hallam SJ.

Curr Opin Microbiol. 2016 Jun;31:209-216. doi: 10.1016/j.mib.2016.04.014. Epub 2016 May 13. Review.

48.

Bing-Neel Syndrome Case Report: A Previously Undocumented IgG Variant with MRI, PET/CT, and PET/MRI Imaging.

Halperin D, Hallam S, Haroon A, Butler T, Agrawal S.

Case Rep Hematol. 2016;2016:3931709. doi: 10.1155/2016/3931709. Epub 2016 Apr 6.

49.

High-resolution phylogenetic microbial community profiling.

Singer E, Bushnell B, Coleman-Derr D, Bowman B, Bowers RM, Levy A, Gies EA, Cheng JF, Copeland A, Klenk HP, Hallam SJ, Hugenholtz P, Tringe SG, Woyke T.

ISME J. 2016 Aug;10(8):2020-32. doi: 10.1038/ismej.2015.249. Epub 2016 Feb 9.

50.

Synthesis and evaluation of a series of 6-chloro-4-methylumbelliferyl glycosides as fluorogenic reagents for screening metagenomic libraries for glycosidase activity.

Chen HM, Armstrong Z, Hallam SJ, Withers SG.

Carbohydr Res. 2016 Feb 8;421:33-39. doi: 10.1016/j.carres.2015.12.010. Epub 2016 Jan 5.

PMID:
26774876

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