Sort by
Items per page

Send to

Choose Destination

Search results

Items: 1 to 50 of 66


Genomes and secretomes of Ascomycota fungi reveal diverse functions in plant biomass decomposition and pathogenesis.

Challacombe JF, Hesse CN, Bramer LM, McCue LA, Lipton M, Purvine S, Nicora C, Gallegos-Graves V, Porras-Alfaro A, Kuske CR.

BMC Genomics. 2019 Dec 12;20(1):976. doi: 10.1186/s12864-019-6358-x.


Weight Loss Affects Intramyocardial Glucose Metabolism in Obese Humans.

Madigan MJ Jr, Racette SB, Coggan AR, Stein RI, McCue LM, Gropler RJ, Peterson LR.

Circ Cardiovasc Imaging. 2019 Aug;12(8):e009241. doi: 10.1161/CIRCIMAGING.119.009241. Epub 2019 Jul 29. No abstract available.


Metaphenomic Responses of a Native Prairie Soil Microbiome to Moisture Perturbations.

Roy Chowdhury T, Lee JY, Bottos EM, Brislawn CJ, White RA 3rd, Bramer LM, Brown J, Zucker JD, Kim YM, Jumpponen A, Rice CW, Fansler SJ, Metz TO, McCue LA, Callister SJ, Song HS, Jansson JK.

mSystems. 2019 Jun 11;4(4). pii: e00061-19. doi: 10.1128/mSystems.00061-19.


pmartR: Quality Control and Statistics for Mass Spectrometry-Based Biological Data.

Stratton KG, Webb-Robertson BM, McCue LA, Stanfill B, Claborne D, Godinez I, Johansen T, Thompson AM, Burnum-Johnson KE, Waters KM, Bramer LM.

J Proteome Res. 2019 Mar 1;18(3):1418-1425. doi: 10.1021/acs.jproteome.8b00760. Epub 2019 Jan 28.


Reduced non-rapid eye movement sleep is associated with tau pathology in early Alzheimer's disease.

Lucey BP, McCullough A, Landsness EC, Toedebusch CD, McLeland JS, Zaza AM, Fagan AM, McCue L, Xiong C, Morris JC, Benzinger TLS, Holtzman DM.

Sci Transl Med. 2019 Jan 9;11(474). pii: eaau6550. doi: 10.1126/scitranslmed.aau6550. Erratum in: Sci Transl Med. 2020 Jan 8;12(525):.


Assessment of Racial Disparities in Biomarkers for Alzheimer Disease.

Morris JC, Schindler SE, McCue LM, Moulder KL, Benzinger TLS, Cruchaga C, Fagan AM, Grant E, Gordon BA, Holtzman DM, Xiong C.

JAMA Neurol. 2019 Mar 1;76(3):264-273. doi: 10.1001/jamaneurol.2018.4249.


Identification of metabolite and protein explanatory variables governing microbiome establishment and re-establishment within a cellulose-degrading anaerobic bioreactor.

Callister SJ, McCue LA, Boaro AA, LaMarche B, White RA 3rd, Brown JM, Ahring BK.

PLoS One. 2018 Oct 5;13(10):e0204831. doi: 10.1371/journal.pone.0204831. eCollection 2018.


Longitudinal decreases in multiple cerebrospinal fluid biomarkers of neuronal injury in symptomatic late onset Alzheimer's disease.

Sutphen CL, McCue L, Herries EM, Xiong C, Ladenson JH, Holtzman DM, Fagan AM; ADNI.

Alzheimers Dement. 2018 Jul;14(7):869-879. doi: 10.1016/j.jalz.2018.01.012. Epub 2018 Mar 23.


ApoE4 markedly exacerbates tau-mediated neurodegeneration in a mouse model of tauopathy.

Shi Y, Yamada K, Liddelow SA, Smith ST, Zhao L, Luo W, Tsai RM, Spina S, Grinberg LT, Rojas JC, Gallardo G, Wang K, Roh J, Robinson G, Finn MB, Jiang H, Sullivan PM, Baufeld C, Wood MW, Sutphen C, McCue L, Xiong C, Del-Aguila JL, Morris JC, Cruchaga C; Alzheimer’s Disease Neuroimaging Initiative, Fagan AM, Miller BL, Boxer AL, Seeley WW, Butovsky O, Barres BA, Paul SM, Holtzman DM.

Nature. 2017 Sep 28;549(7673):523-527. doi: 10.1038/nature24016. Epub 2017 Sep 20.


Gastrointestinal dysfunctions as a risk factor for sleep disorders in children with idiopathic autism spectrum disorder: A retrospective cohort study.

McCue LM, Flick LH, Twyman KA, Xian H.

Autism. 2017 Nov;21(8):1010-1020. doi: 10.1177/1362361316667061. Epub 2017 Feb 12.


Factors affecting the bacterial community composition and heterotrophic production of Columbia River estuarine turbidity maxima.

Herfort L, Crump BC, Fortunato CS, McCue LA, Campbell V, Simon HM, Baptista AM, Zuber P.

Microbiologyopen. 2017 Dec;6(6). doi: 10.1002/mbo3.522. Epub 2017 Aug 6.


Upward drift in cerebrospinal fluid amyloid β 42 assay values for more than 10 years.

Schindler SE, Sutphen CL, Teunissen C, McCue LM, Morris JC, Holtzman DM, Mulder SD, Scheltens P, Xiong C, Fagan AM.

Alzheimers Dement. 2018 Jan;14(1):62-70. doi: 10.1016/j.jalz.2017.06.2264. Epub 2017 Jul 12. Erratum in: Alzheimers Dement. 2018 Aug;14(8):1100.


FQC Dashboard: integrates FastQC results into a web-based, interactive, and extensible FASTQ quality control tool.

Brown J, Pirrung M, McCue LA.

Bioinformatics. 2017 Oct 1;33(19):3137-3139. doi: 10.1093/bioinformatics/btx373. Epub 2017 Jun 9.


Neuropsychological measures that detect early impairment and decline in preclinical Alzheimer disease.

Schindler SE, Jasielec MS, Weng H, Hassenstab JJ, Grober E, McCue LM, Morris JC, Holtzman DM, Xiong C, Fagan AM.

Neurobiol Aging. 2017 Aug;56:25-32. doi: 10.1016/j.neurobiolaging.2017.04.004. Epub 2017 Apr 14.


Network analysis of transcriptomics expands regulatory landscapes in Synechococcus sp. PCC 7002.

McClure RS, Overall CC, McDermott JE, Hill EA, Markillie LM, McCue LA, Taylor RC, Ludwig M, Bryant DA, Beliaev AS.

Nucleic Acids Res. 2016 Oct 14;44(18):8810-8825. Epub 2016 Aug 27.


Imaging and cerebrospinal fluid biomarkers in early preclinical alzheimer disease.

Vlassenko AG, McCue L, Jasielec MS, Su Y, Gordon BA, Xiong C, Holtzman DM, Benzinger TL, Morris JC, Fagan AM.

Ann Neurol. 2016 Sep;80(3):379-87. doi: 10.1002/ana.24719. Epub 2016 Jul 25.


Soil Respiration and Bacterial Structure and Function after 17 Years of a Reciprocal Soil Transplant Experiment.

Bond-Lamberty B, Bolton H, Fansler S, Heredia-Langner A, Liu C, McCue LA, Smith J, Bailey V.

PLoS One. 2016 Mar 2;11(3):e0150599. doi: 10.1371/journal.pone.0150599. eCollection 2016.


Proteomic profiles of five strains of oxygenic photosynthetic cyanobacteria of the genus Cyanothece.

Aryal UK, Callister SJ, McMahon BH, McCue LA, Brown J, Stöckel J, Liberton M, Mishra S, Zhang X, Nicora CD, Angel TE, Koppenaal DW, Smith RD, Pakrasi HB, Sherman LA.

J Proteome Res. 2014 Jul 3;13(7):3262-76. doi: 10.1021/pr5000889. Epub 2014 Jun 4.


SPOCS: software for predicting and visualizing orthology/paralogy relationships among genomes.

Curtis DS, Phillips AR, Callister SJ, Conlan S, McCue LA.

Bioinformatics. 2013 Oct 15;29(20):2641-2. doi: 10.1093/bioinformatics/btt454. Epub 2013 Aug 16.


Linking microbial community structure to β-glucosidic function in soil aggregates.

Bailey VL, Fansler SJ, Stegen JC, McCue LA.

ISME J. 2013 Oct;7(10):2044-53. doi: 10.1038/ismej.2013.87. Epub 2013 May 30.


Fluctuations in species-level protein expression occur during element and nutrient cycling in the subsurface.

Wilkins MJ, Wrighton KC, Nicora CD, Williams KH, McCue LA, Handley KM, Miller CS, Giloteaux L, Montgomery AP, Lovley DR, Banfield JF, Long PE, Lipton MS.

PLoS One. 2013;8(3):e57819. doi: 10.1371/journal.pone.0057819. Epub 2013 Mar 5.


Fusion of laboratory and textual data for investigative bioforensics.

Webb-Robertson BJ, Corley C, McCue LA, Wahl K, Kreuzer H.

Forensic Sci Int. 2013 Mar 10;226(1-3):118-24. doi: 10.1016/j.forsciint.2012.12.016. Epub 2013 Jan 10.


Geoarchaeota: a new candidate phylum in the Archaea from high-temperature acidic iron mats in Yellowstone National Park.

Kozubal MA, Romine M, Jennings Rd, Jay ZJ, Tringe SG, Rusch DB, Beam JP, McCue LA, Inskeep WP.

ISME J. 2013 Mar;7(3):622-34. doi: 10.1038/ismej.2012.132. Epub 2012 Nov 15.


VESPA: software to facilitate genomic annotation of prokaryotic organisms through integration of proteomic and transcriptomic data.

Peterson ES, McCue LA, Schrimpe-Rutledge AC, Jensen JL, Walker H, Kobold MA, Webb SR, Payne SH, Ansong C, Adkins JN, Cannon WR, Webb-Robertson BJ.

BMC Genomics. 2012 Apr 5;13:131. doi: 10.1186/1471-2164-13-131.


Modeling microbial dynamics in heterogeneous environments: growth on soil carbon sources.

Resat H, Bailey V, McCue LA, Konopka A.

Microb Ecol. 2012 May;63(4):883-97. doi: 10.1007/s00248-011-9965-x. Epub 2011 Dec 23.


A model of cyclic transcriptomic behavior in the cyanobacterium Cyanothece sp. ATCC 51142.

McDermott JE, Oehmen CS, McCue LA, Hill E, Choi DM, Stöckel J, Liberton M, Pakrasi HB, Sherman LA.

Mol Biosyst. 2011 Aug;7(8):2407-18. doi: 10.1039/c1mb05006k. Epub 2011 Jun 23.


Fnr (EtrA) acts as a fine-tuning regulator of anaerobic metabolism in Shewanella oneidensis MR-1.

Cruz-García C, Murray AE, Rodrigues JL, Gralnick JA, McCue LA, Romine MF, Löffler FE, Tiedje JM.

BMC Microbiol. 2011 Mar 30;11:64. doi: 10.1186/1471-2180-11-64.


The tricarboxylic acid cycle in Shewanella oneidensis is independent of Fur and RyhB control.

Yang Y, McCue LA, Parsons AB, Feng S, Zhou J.

BMC Microbiol. 2010 Oct 16;10:264. doi: 10.1186/1471-2180-10-264.


Combined statistical analyses of peptide intensities and peptide occurrences improves identification of significant peptides from MS-based proteomics data.

Webb-Robertson BJ, McCue LA, Waters KM, Matzke MM, Jacobs JM, Metz TO, Varnum SM, Pounds JG.

J Proteome Res. 2010 Nov 5;9(11):5748-56. doi: 10.1021/pr1005247. Epub 2010 Oct 8.


Comparative systems biology across an evolutionary gradient within the Shewanella genus.

Konstantinidis KT, Serres MH, Romine MF, Rodrigues JL, Auchtung J, McCue LA, Lipton MS, Obraztsova A, Giometti CS, Nealson KH, Fredrickson JK, Tiedje JM.

Proc Natl Acad Sci U S A. 2009 Sep 15;106(37):15909-14. doi: 10.1073/pnas.0902000106. Epub 2009 Sep 1.


A Bayesian integration model of high-throughput proteomics and metabolomics data for improved early detection of microbial infections.

Webb-Robertson BJ, McCue LA, Beagley N, McDermott JE, Wunschel DS, Varnum SM, Hu JZ, Isern NG, Buchko GW, Mcateer K, Pounds JG, Skerrett SJ, Liggitt D, Frevert CW.

Pac Symp Biocomput. 2009:451-63.


Identification of diverse carbon utilization pathways in Shewanella oneidensis MR-1 via expression profiling.

Driscoll ME, Romine MF, Juhn FS, Serres MH, McCue LA, Beliaev AS, Fredrickson JK, Gardner TS.

Genome Inform. 2007;18:287-98.


Measuring global credibility with application to local sequence alignment.

Webb-Robertson BJ, McCue LA, Lawrence CE.

PLoS Comput Biol. 2008 May 16;4(5):e1000077. doi: 10.1371/journal.pcbi.1000077.


Using the Gibbs motif sampler to find conserved domains in DNA and protein sequences.

Thompson W, McCue LA, Lawrence CE.

Curr Protoc Bioinformatics. 2005 Jul;Chapter 2:Unit 2.8. doi: 10.1002/0471250953.bi0208s10.


Identification of mobile elements and pseudogenes in the Shewanella oneidensis MR-1 genome.

Romine MF, Carlson TS, Norbeck AD, McCue LA, Lipton MS.

Appl Environ Microbiol. 2008 May;74(10):3257-65. doi: 10.1128/AEM.02720-07. Epub 2008 Mar 31.


Comparative bacterial proteomics: analysis of the core genome concept.

Callister SJ, McCue LA, Turse JE, Monroe ME, Auberry KJ, Smith RD, Adkins JN, Lipton MS.

PLoS One. 2008 Feb 6;3(2):e1542. doi: 10.1371/journal.pone.0001542.


Using the Gibbs Motif Sampler for phylogenetic footprinting.

Thompson W, Conlan S, McCue LA, Lawrence CE.

Methods Mol Biol. 2007;395:403-24.


A phylogenetic Gibbs sampler that yields centroid solutions for cis-regulatory site prediction.

Newberg LA, Thompson WA, Conlan S, Smith TM, McCue LA, Lawrence CE.

Bioinformatics. 2007 Jul 15;23(14):1718-27. Epub 2007 May 8.


The Gibbs Centroid Sampler.

Thompson WA, Newberg LA, Conlan S, McCue LA, Lawrence CE.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W232-7. Epub 2007 May 5.


PhyloScan: identification of transcription factor binding sites using cross-species evidence.

Carmack CS, McCue LA, Newberg LA, Lawrence CE.

Algorithms Mol Biol. 2007 Jan 23;2:1.


Software to perform automated comparisons of pair-wise percent identities for microbial species.

Conlan S, McCue LA.

Biotechniques. 2006 May;40(5):578, 580,582. No abstract available.


The relative inefficiency of sequence weights approaches in determining a nucleotide position weight matrix.

Newberg LA, McCue LA, Lawrence CE.

Stat Appl Genet Mol Biol. 2005;4:Article13. Epub 2005 Jun 1.


Rhodopseudomonas palustris regulons detected by cross-species analysis of alphaproteobacterial genomes.

Conlan S, Lawrence C, McCue LA.

Appl Environ Microbiol. 2005 Nov;71(11):7442-52.


Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations.

Kolker E, Picone AF, Galperin MY, Romine MF, Higdon R, Makarova KS, Kolker N, Anderson GA, Qiu X, Auberry KJ, Babnigg G, Beliaev AS, Edlefsen P, Elias DA, Gorby YA, Holzman T, Klappenbach JA, Konstantinidis KT, Land ML, Lipton MS, McCue LA, Monroe M, Pasa-Tolic L, Pinchuk G, Purvine S, Serres MH, Tsapin S, Zakrajsek BA, Zhu W, Zhou J, Larimer FW, Lawrence CE, Riley M, Collart FR, Yates JR 3rd, Smith RD, Giometti CS, Nealson KH, Fredrickson JK, Tiedje JM.

Proc Natl Acad Sci U S A. 2005 Feb 8;102(6):2099-104. Epub 2005 Jan 31.


Making connections between novel transcription factors and their DNA motifs.

Tan K, McCue LA, Stormo GD.

Genome Res. 2005 Feb;15(2):312-20. Epub 2005 Jan 14.


Transcriptomic and proteomic characterization of the Fur modulon in the metal-reducing bacterium Shewanella oneidensis.

Wan XF, Verberkmoes NC, McCue LA, Stanek D, Connelly H, Hauser LJ, Wu L, Liu X, Yan T, Leaphart A, Hettich RL, Zhou J, Thompson DK.

J Bacteriol. 2004 Dec;186(24):8385-400.


A family of acr-coregulated Mycobacterium tuberculosis genes shares a common DNA motif and requires Rv3133c (dosR or devR) for expression.

Florczyk MA, McCue LA, Purkayastha A, Currenti E, Wolin MJ, McDonough KA.

Infect Immun. 2003 Sep;71(9):5332-43.

Supplemental Content

Support Center