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Results: 1 to 20 of 126

1.

Single-Molecule Long Read 16S Sequencing to Characterize the Lung Microbiome from Mechanically Ventilated Patients with Suspected Pneumonia.

Toma I, Siegel MO, Keiser J, Yakovleva A, Kim A, Davenport L, Devaney J, Hoffman EP, Alsubail R, Crandall KA, Castro-Nallar E, Pérez-Losada M, Hilton S, Chawla LS, McCaffrey TA, Simon GL.

J Clin Microbiol. 2014 Aug 20. pii: JCM.01678-14. [Epub ahead of print]

PMID:
25143582
[PubMed - as supplied by publisher]
2.

Characteristics and prediction of RNA structure.

Li H, Zhu D, Zhang C, Han H, Crandall KA.

Biomed Res Int. 2014;2014:690340. doi: 10.1155/2014/690340. Epub 2014 Jul 6.

PMID:
25110687
[PubMed - in process]
Free PMC Article
3.

Clinical PathoScope: rapid alignment and filtration for accurate pathogen identification in clinical samples using unassembled sequencing data.

Byrd AL, Perez-Rogers JF, Manimaran S, Castro-Nallar E, Toma I, McCaffrey T, Siegel M, Benson G, Crandall KA, Johnson WE.

BMC Bioinformatics. 2014 Aug 4;15:262. doi: 10.1186/1471-2105-15-262.

PMID:
25091138
[PubMed - in process]
Free PMC Article
4.

Whole genome single-nucleotide variation profile-based phylogenetic tree building methods for analysis of viral, bacterial and human genomes.

Faison WJ, Rostovtsev A, Castro-Nallar E, Crandall KA, Chumakov K, Simonyan V, Mazumder R.

Genomics. 2014 Jul;104(1):1-7. doi: 10.1016/j.ygeno.2014.06.001. Epub 2014 Jun 12.

PMID:
24930720
[PubMed - in process]
5.

Life in extreme environments: microbial diversity in Great Salt Lake, Utah.

Tazi L, Breakwell DP, Harker AR, Crandall KA.

Extremophiles. 2014 May;18(3):525-35. doi: 10.1007/s00792-014-0637-x. Epub 2014 Mar 30.

PMID:
24682608
[PubMed - in process]
6.

The emergence of lobsters: phylogenetic relationships, morphological evolution and divergence time comparisons of an ancient group (decapoda: achelata, astacidea, glypheidea, polychelida).

Bracken-Grissom HD, Ahyong ST, Wilkinson RD, Feldmann RM, Schweitzer CE, Breinholt JW, Bendall M, Palero F, Chan TY, Felder DL, Robles R, Chu KH, Tsang LM, Kim D, Martin JW, Crandall KA.

Syst Biol. 2014 Jul;63(4):457-79. doi: 10.1093/sysbio/syu008. Epub 2014 Feb 20.

PMID:
24562813
[PubMed - indexed for MEDLINE]
7.

Lost branches on the tree of life.

Drew BT, Gazis R, Cabezas P, Swithers KS, Deng J, Rodriguez R, Katz LA, Crandall KA, Hibbett DS, Soltis DE.

PLoS Biol. 2013 Sep;11(9):e1001636. doi: 10.1371/journal.pbio.1001636. Epub 2013 Sep 3. No abstract available.

PMID:
24019756
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Pathoscope: species identification and strain attribution with unassembled sequencing data.

Francis OE, Bendall M, Manimaran S, Hong C, Clement NL, Castro-Nallar E, Snell Q, Schaalje GB, Clement MJ, Crandall KA, Johnson WE.

Genome Res. 2013 Oct;23(10):1721-9. doi: 10.1101/gr.150151.112. Epub 2013 Jul 10.

PMID:
23843222
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

A comprehensive and integrative reconstruction of evolutionary history for Anomura (Crustacea: Decapoda).

Bracken-Grissom HD, Cannon ME, Cabezas P, Feldmann RM, Schweitzer CE, Ahyong ST, Felder DL, Lemaitre R, Crandall KA.

BMC Evol Biol. 2013 Jun 20;13:128. doi: 10.1186/1471-2148-13-128.

PMID:
23786343
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Pathogen typing in the genomics era: MLST and the future of molecular epidemiology.

Pérez-Losada M, Cabezas P, Castro-Nallar E, Crandall KA.

Infect Genet Evol. 2013 Jun;16:38-53. doi: 10.1016/j.meegid.2013.01.009. Epub 2013 Jan 26. Review.

PMID:
23357583
[PubMed - indexed for MEDLINE]
11.

Phylogeny and evolutionary patterns in the Dwarf crayfish subfamily (Decapoda: Cambarellinae).

Pedraza-Lara C, Doadrio I, Breinholt JW, Crandall KA.

PLoS One. 2012;7(11):e48233. doi: 10.1371/journal.pone.0048233. Epub 2012 Nov 14.

PMID:
23155379
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Phylogenetics links monster larva to deep-sea shrimp.

Bracken-Grissom HD, Felder DL, Vollmer NL, Martin JW, Crandall KA.

Ecol Evol. 2012 Oct;2(10):2367-73. doi: 10.1002/ece3.347. Epub 2012 Aug 24.

PMID:
23145324
[PubMed]
Free PMC Article
13.

Testing phylogenetic hypotheses of the subgenera of the freshwater crayfish genus Cambarus (Decapoda: Cambaridae).

Breinholt JW, Porter ML, Crandall KA.

PLoS One. 2012;7(9):e46105. doi: 10.1371/journal.pone.0046105. Epub 2012 Sep 26.

PMID:
23049950
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Insights into origins of Human T-cell Lymphotropic Virus Type 1 based on new strains from aboriginal people of Canada.

Andonov A, Coulthart MB, Pérez-Losada M, Crandall KA, Posada D, Padmore R, Giulivi A, Oger JJ, Peters AA, Dekaban GA.

Infect Genet Evol. 2012 Dec;12(8):1822-30. doi: 10.1016/j.meegid.2012.07.015. Epub 2012 Aug 13.

PMID:
22921499
[PubMed - indexed for MEDLINE]
15.

A Genomic Island in Salmonella enterica ssp. salamae provides new insights on the genealogy of the locus of enterocyte effacement.

Chandry PS, Gladman S, Moore SC, Seemann T, Crandall KA, Fegan N.

PLoS One. 2012;7(7):e41615. doi: 10.1371/journal.pone.0041615. Epub 2012 Jul 30.

PMID:
22860002
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Molecular phylogeny and character evolution of the chthamaloid barnacles (Cirripedia: Thoracica).

Pérez-Losada M, Høeg JT, Crandall KA, Achituv Y.

Mol Phylogenet Evol. 2012 Oct;65(1):329-34. doi: 10.1016/j.ympev.2012.06.004. Epub 2012 Jun 19.

PMID:
22728169
[PubMed - indexed for MEDLINE]
17.

Conflicting evolutionary patterns due to mitochondrial introgression and multilocus phylogeography of the Patagonian freshwater crab Aegla neuquensis.

Barber BR, Xu J, Pérez-Losada M, Jara CG, Crandall KA.

PLoS One. 2012;7(6):e37105. doi: 10.1371/journal.pone.0037105. Epub 2012 Jun 7.

PMID:
22685541
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Deep phylogeny and character evolution in Thecostraca (Crustacea: Maxillopoda).

Pérez-Losada M, Høeg JT, Crandall KA.

Integr Comp Biol. 2012 Sep;52(3):430-42. doi: 10.1093/icb/ics051. Epub 2012 Apr 24. Review.

PMID:
22532607
[PubMed - indexed for MEDLINE]
Free Article
19.

Population genomics and phylogeography of an Australian dairy factory derived lytic bacteriophage.

Castro-Nallar E, Chen H, Gladman S, Moore SC, Seemann T, Powell IB, Hillier A, Crandall KA, Chandry PS.

Genome Biol Evol. 2012;4(3):382-93. doi: 10.1093/gbe/evs017. Epub 2012 Feb 21.

PMID:
22355195
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

The evolution of HIV: inferences using phylogenetics.

Castro-Nallar E, Pérez-Losada M, Burton GF, Crandall KA.

Mol Phylogenet Evol. 2012 Feb;62(2):777-92. doi: 10.1016/j.ympev.2011.11.019. Epub 2011 Nov 27. Review.

PMID:
22138161
[PubMed - indexed for MEDLINE]
Free PMC Article

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