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Items: 48

1.

Effects of continuous bisphenol A exposure from early gestation on 90 day old rat testes function and sperm molecular profiles: A CLARITY-BPA consortium study.

Dere E, Anderson LM, Huse SM, Spade DJ, McDonnell-Clark E, Madnick SJ, Hall SJ, Camacho L, Lewis SM, Vanlandingham MM, Boekelheide K.

Toxicol Appl Pharmacol. 2018 May 15;347:1-9. doi: 10.1016/j.taap.2018.03.021. Epub 2018 Mar 26.

2.

Interpreting Prevotella and Bacteroides as biomarkers of diet and lifestyle.

Gorvitovskaia A, Holmes SP, Huse SM.

Microbiome. 2016 Apr 12;4:15. doi: 10.1186/s40168-016-0160-7.

3.

Morphologic effects of estrogen stimulation on 3D MCF-7 microtissues.

Vantangoli MM, Wilson S, Madnick SJ, Huse SM, Boekelheide K.

Toxicol Lett. 2016 Apr 25;248:1-8. doi: 10.1016/j.toxlet.2016.02.012. Epub 2016 Feb 24.

4.

Patterns of gene expression and DNA methylation in human fetal and adult liver.

Huse SM, Gruppuso PA, Boekelheide K, Sanders JA.

BMC Genomics. 2015 Nov 21;16:981. doi: 10.1186/s12864-015-2066-3.

5.

MCF-7 Human Breast Cancer Cells Form Differentiated Microtissues in Scaffold-Free Hydrogels.

Vantangoli MM, Madnick SJ, Huse SM, Weston P, Boekelheide K.

PLoS One. 2015 Aug 12;10(8):e0135426. doi: 10.1371/journal.pone.0135426. eCollection 2015.

6.

Erratum to: Stability of operational taxonomic units: an important but neglected property for analyzing microbial diversity.

He Y, Caporaso JG, Jiang XT, Sheng HF, Huse SM, Rideout JR, Edgar RC, Kopylova E, Walters WA, Knight R, Zhou HW.

Microbiome. 2015 Jul 31;3:34. doi: 10.1186/s40168-015-0098-1. eCollection 2015.

7.

Stability of operational taxonomic units: an important but neglected property for analyzing microbial diversity.

He Y, Caporaso JG, Jiang XT, Sheng HF, Huse SM, Rideout JR, Edgar RC, Kopylova E, Walters WA, Knight R, Zhou HW.

Microbiome. 2015 May 20;3:20. doi: 10.1186/s40168-015-0081-x. eCollection 2015. Erratum in: Microbiome. 2015;3:34.

8.

Developmental exposure to estrogen alters differentiation and epigenetic programming in a human fetal prostate xenograft model.

Saffarini CM, McDonnell-Clark EV, Amin A, Huse SM, Boekelheide K.

PLoS One. 2015 Mar 23;10(3):e0122290. doi: 10.1371/journal.pone.0122290. eCollection 2015.

9.

Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences.

Rideout JR, He Y, Navas-Molina JA, Walters WA, Ursell LK, Gibbons SM, Chase J, McDonald D, Gonzalez A, Robbins-Pianka A, Clemente JC, Gilbert JA, Huse SM, Zhou HW, Knight R, Caporaso JG.

PeerJ. 2014 Aug 21;2:e545. doi: 10.7717/peerj.545. eCollection 2014.

10.

Oligotyping analysis of the human oral microbiome.

Eren AM, Borisy GG, Huse SM, Mark Welch JL.

Proc Natl Acad Sci U S A. 2014 Jul 15;111(28):E2875-84. doi: 10.1073/pnas.1409644111. Epub 2014 Jun 25.

13.

Comparison of brush and biopsy sampling methods of the ileal pouch for assessment of mucosa-associated microbiota of human subjects.

Huse SM, Young VB, Morrison HG, Antonopoulos DA, Kwon J, Dalal S, Arrieta R, Hubert NA, Shen L, Vineis JH, Koval JC, Sogin ML, Chang EB, Raffals LE.

Microbiome. 2014 Feb 14;2(1):5. doi: 10.1186/2049-2618-2-5.

14.

VAMPS: a website for visualization and analysis of microbial population structures.

Huse SM, Mark Welch DB, Voorhis A, Shipunova A, Morrison HG, Eren AM, Sogin ML.

BMC Bioinformatics. 2014 Feb 5;15:41. doi: 10.1186/1471-2105-15-41.

15.

Multiphasic analysis of the temporal development of the distal gut microbiota in patients following ileal pouch anal anastomosis.

Young VB, Raffals LH, Huse SM, Vital M, Dai D, Schloss PD, Brulc JM, Antonopoulos DA, Arrieta RL, Kwon JH, Reddy KG, Hubert NA, Grim SL, Vineis JH, Dalal S, Morrison HG, Eren AM, Meyer F, Schmidt TM, Tiedje JM, Chang EB, Sogin ML.

Microbiome. 2013 Mar 4;1(1):9. doi: 10.1186/2049-2618-1-9.

16.

Differential response to abiraterone acetate and di-n-butyl phthalate in an androgen-sensitive human fetal testis xenograft bioassay.

Spade DJ, Hall SJ, Saffarini CM, Huse SM, McDonnell EV, Boekelheide K.

Toxicol Sci. 2014 Mar;138(1):148-60. doi: 10.1093/toxsci/kft266. Epub 2013 Nov 27.

17.

Shifts in the microbial community composition of Gulf Coast beaches following beach oiling.

Newton RJ, Huse SM, Morrison HG, Peake CS, Sogin ML, McLellan SL.

PLoS One. 2013 Sep 10;8(9):e74265. doi: 10.1371/journal.pone.0074265. eCollection 2013. Erratum in: PLoS One. 2014;9(4):e94671.

18.

Maturation of the developing human fetal prostate in a rodent xenograft model.

Saffarini CM, McDonnell EV, Amin A, Spade DJ, Huse SM, Kostadinov S, Hall SJ, Boekelheide K.

Prostate. 2013 Dec;73(16):1761-75. doi: 10.1002/pros.22713. Epub 2013 Aug 30.

19.

DRISEE overestimates errors in metagenomic sequencing data.

Eren AM, Morrison HG, Huse SM, Sogin ML.

Brief Bioinform. 2014 Sep;15(5):783-7. doi: 10.1093/bib/bbt010. Epub 2013 May 22.

20.

Sewage reflects the distribution of human faecal Lachnospiraceae.

McLellan SL, Newton RJ, Vandewalle JL, Shanks OC, Huse SM, Eren AM, Sogin ML.

Environ Microbiol. 2013 Aug;15(8):2213-27. doi: 10.1111/1462-2920.12092. Epub 2013 Feb 25.

21.

Comparison of the microbial community structures of untreated wastewaters from different geographic locales.

Shanks OC, Newton RJ, Kelty CA, Huse SM, Sogin ML, McLellan SL.

Appl Environ Microbiol. 2013 May;79(9):2906-13. doi: 10.1128/AEM.03448-12. Epub 2013 Feb 22.

22.

Distance-decay relationships partially determine diversity patterns of phyllosphere bacteria on Tamarix trees across the Sonoran Desert [corrected].

Finkel OM, Burch AY, Elad T, Huse SM, Lindow SE, Post AF, Belkin S.

Appl Environ Microbiol. 2012 Sep;78(17):6187-93. doi: 10.1128/AEM.00888-12. Epub 2012 Jun 29. Erratum in: Appl Environ Microbiol. 2012 Nov;78(21):7818.

23.

A core human microbiome as viewed through 16S rRNA sequence clusters.

Huse SM, Ye Y, Zhou Y, Fodor AA.

PLoS One. 2012;7(6):e34242. doi: 10.1371/journal.pone.0034242. Epub 2012 Jun 13.

24.

TaxMan: a server to trim rRNA reference databases and inspect taxonomic coverage.

Brandt BW, Bonder MJ, Huse SM, Zaura E.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W82-7. doi: 10.1093/nar/gks418. Epub 2012 May 22.

25.

Acinetobacter, Aeromonas and Trichococcus populations dominate the microbial community within urban sewer infrastructure.

Vandewalle JL, Goetz GW, Huse SM, Morrison HG, Sogin ML, Hoffmann RG, Yan K, McLellan SL.

Environ Microbiol. 2012 Sep;14(9):2538-52. doi: 10.1111/j.1462-2920.2012.02757.x. Epub 2012 Apr 24.

26.

Global distribution and diversity of marine Verrucomicrobia.

Freitas S, Hatosy S, Fuhrman JA, Huse SM, Welch DB, Sogin ML, Martiny AC.

ISME J. 2012 Aug;6(8):1499-505. doi: 10.1038/ismej.2012.3. Epub 2012 Feb 9.

27.

Ecology of the microbiome of the infected root canal system: a comparison between apical and coronal root segments.

Ozok AR, Persoon IF, Huse SM, Keijser BJ, Wesselink PR, Crielaard W, Zaura E.

Int Endod J. 2012 Jun;45(6):530-41. doi: 10.1111/j.1365-2591.2011.02006.x. Epub 2012 Jan 17.

28.

Diversity and dynamics of rare and of resident bacterial populations in coastal sands.

Gobet A, Böer SI, Huse SM, van Beusekom JE, Quince C, Sogin ML, Boetius A, Ramette A.

ISME J. 2012 Mar;6(3):542-53. doi: 10.1038/ismej.2011.132. Epub 2011 Oct 6.

29.

Global patterns of bacterial beta-diversity in seafloor and seawater ecosystems.

Zinger L, Amaral-Zettler LA, Fuhrman JA, Horner-Devine MC, Huse SM, Welch DB, Martiny JB, Sogin M, Boetius A, Ramette A.

PLoS One. 2011;6(9):e24570. doi: 10.1371/journal.pone.0024570. Epub 2011 Sep 8.

30.

Long term seasonal dynamics of synechococcus population structure in the gulf of aqaba, northern red sea.

Post AF, Penno S, Zandbank K, Paytan A, Huse SM, Welch DM.

Front Microbiol. 2011 Jun 20;2:131. doi: 10.3389/fmicb.2011.00131. eCollection 2011.

31.

Culture-independent analysis of bacterial fuel contamination provides insight into the level of concordance with the standard industry practice of aerobic cultivation.

White J, Gilbert J, Hill G, Hill E, Huse SM, Weightman AJ, Mahenthiralingam E.

Appl Environ Microbiol. 2011 Jul;77(13):4527-38. doi: 10.1128/AEM.02317-10. Epub 2011 May 20.

32.

A large-scale benchmark study of existing algorithms for taxonomy-independent microbial community analysis.

Sun Y, Cai Y, Huse SM, Knight R, Farmerie WG, Wang X, Mai V.

Brief Bioinform. 2012 Jan;13(1):107-21. doi: 10.1093/bib/bbr009. Epub 2011 Apr 27.

33.

Community structures of fecal bacteria in cattle from different animal feeding operations.

Shanks OC, Kelty CA, Archibeque S, Jenkins M, Newton RJ, McLellan SL, Huse SM, Sogin ML.

Appl Environ Microbiol. 2011 May;77(9):2992-3001. doi: 10.1128/AEM.02988-10. Epub 2011 Mar 4.

34.

Exploring the oral microbiota of children at various developmental stages of their dentition in the relation to their oral health.

Crielaard W, Zaura E, Schuller AA, Huse SM, Montijn RC, Keijser BJ.

BMC Med Genomics. 2011 Mar 4;4:22. doi: 10.1186/1755-8794-4-22.

35.

Isolated communities of Epsilonproteobacteria in hydrothermal vent fluids of the Mariana Arc seamounts.

Huber JA, Cantin HV, Huse SM, Welch DB, Sogin ML, Butterfield DA.

FEMS Microbiol Ecol. 2010 Sep;73(3):538-49. doi: 10.1111/j.1574-6941.2010.00910.x. Epub 2010 May 14.

36.

Ironing out the wrinkles in the rare biosphere through improved OTU clustering.

Huse SM, Welch DM, Morrison HG, Sogin ML.

Environ Microbiol. 2010 Jul;12(7):1889-98. doi: 10.1111/j.1462-2920.2010.02193.x. Epub 2010 Mar 11.

37.

Defining the healthy "core microbiome" of oral microbial communities.

Zaura E, Keijser BJ, Huse SM, Crielaard W.

BMC Microbiol. 2009 Dec 15;9:259. doi: 10.1186/1471-2180-9-259.

38.

Diversity and population structure of sewage-derived microorganisms in wastewater treatment plant influent.

McLellan SL, Huse SM, Mueller-Spitz SR, Andreishcheva EN, Sogin ML.

Environ Microbiol. 2010 Feb;12(2):378-92. doi: 10.1111/j.1462-2920.2009.02075.x. Epub 2009 Oct 16. Erratum in: Environ Microbiol. 2010 May;12(5):1376.

39.

A method for studying protistan diversity using massively parallel sequencing of V9 hypervariable regions of small-subunit ribosomal RNA genes.

Amaral-Zettler LA, McCliment EA, Ducklow HW, Huse SM.

PLoS One. 2009 Jul 27;4(7):e6372. doi: 10.1371/journal.pone.0006372. Erratum in: PLoS One. 2009;4(12). doi: 10.1371/annotation/50c43133-0df5-4b8b-8975-8cc37d4f2f26.

40.

Reproducible community dynamics of the gastrointestinal microbiota following antibiotic perturbation.

Antonopoulos DA, Huse SM, Morrison HG, Schmidt TM, Sogin ML, Young VB.

Infect Immun. 2009 Jun;77(6):2367-75. doi: 10.1128/IAI.01520-08. Epub 2009 Mar 23.

41.

Effect of PCR amplicon size on assessments of clone library microbial diversity and community structure.

Huber JA, Morrison HG, Huse SM, Neal PR, Sogin ML, Mark Welch DB.

Environ Microbiol. 2009 May;11(5):1292-302. doi: 10.1111/j.1462-2920.2008.01857.x. Epub 2009 Feb 9.

42.

Exploring microbial diversity and taxonomy using SSU rRNA hypervariable tag sequencing.

Huse SM, Dethlefsen L, Huber JA, Mark Welch D, Relman DA, Sogin ML.

PLoS Genet. 2008 Nov;4(11):e1000255. doi: 10.1371/journal.pgen.1000255. Epub 2008 Nov 21. Erratum in: PLoS Genet. 2008 Dec;4(12). doi: 10.1371/annotation/3d8a6578-ce56-45aa-bc71-05078355b851. Welch, David Mark [corrected to Mark Welch, David].

43.

Pyrosequencing analysis of the oral microflora of healthy adults.

Keijser BJ, Zaura E, Huse SM, van der Vossen JM, Schuren FH, Montijn RC, ten Cate JM, Crielaard W.

J Dent Res. 2008 Nov;87(11):1016-20.

PMID:
18946007
44.

Microbial population structures in the deep marine biosphere.

Huber JA, Mark Welch DB, Morrison HG, Huse SM, Neal PR, Butterfield DA, Sogin ML.

Science. 2007 Oct 5;318(5847):97-100.

45.

Genomic minimalism in the early diverging intestinal parasite Giardia lamblia.

Morrison HG, McArthur AG, Gillin FD, Aley SB, Adam RD, Olsen GJ, Best AA, Cande WZ, Chen F, Cipriano MJ, Davids BJ, Dawson SC, Elmendorf HG, Hehl AB, Holder ME, Huse SM, Kim UU, Lasek-Nesselquist E, Manning G, Nigam A, Nixon JE, Palm D, Passamaneck NE, Prabhu A, Reich CI, Reiner DS, Samuelson J, Svard SG, Sogin ML.

Science. 2007 Sep 28;317(5846):1921-6.

46.

Accuracy and quality of massively parallel DNA pyrosequencing.

Huse SM, Huber JA, Morrison HG, Sogin ML, Welch DM.

Genome Biol. 2007;8(7):R143.

47.

Microbial diversity in the deep sea and the underexplored "rare biosphere".

Sogin ML, Morrison HG, Huber JA, Mark Welch D, Huse SM, Neal PR, Arrieta JM, Herndl GJ.

Proc Natl Acad Sci U S A. 2006 Aug 8;103(32):12115-20. Epub 2006 Jul 31.

48.

Proline transport by brush-border membrane vesicles of lobster antennal glands.

Behnke RD, Wong RK, Huse SM, Reshkin SJ, Ahearn GA.

Am J Physiol. 1990 Feb;258(2 Pt 2):F311-20.

PMID:
2155538

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