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Results: 1 to 20 of 57

1.

Using metabolomic and transportomic modeling and machine learning to identify putative novel therapeutic targets for antibiotic resistant Pseudomonad infections.

Larsen PE, Collart FR, Yang Dai.

Conf Proc IEEE Eng Med Biol Soc. 2014 Aug;2014:314-7. doi: 10.1109/EMBC.2014.6943592.

PMID:
25569960
[PubMed - in process]
2.

Predicting bacterial community assemblages using an artificial neural network approach.

Larsen P, Dai Y, Collart FR.

Methods Mol Biol. 2015;1260:33-43. doi: 10.1007/978-1-4939-2239-0_3.

PMID:
25502374
[PubMed - in process]
3.

Modeling forest ecosystem responses to elevated carbon dioxide and ozone using artificial neural networks.

Larsen PE, Cseke LJ, Miller RM, Collart FR.

J Theor Biol. 2014 Oct 21;359:61-71. doi: 10.1016/j.jtbi.2014.05.047. Epub 2014 Jun 10.

PMID:
24928153
[PubMed - in process]
4.

Structural and functional characterization of solute binding proteins for aromatic compounds derived from lignin: p-coumaric acid and related aromatic acids.

Tan K, Chang C, Cuff M, Osipiuk J, Landorf E, Mack JC, Zerbs S, Joachimiak A, Collart FR.

Proteins. 2013 Oct;81(10):1709-26. doi: 10.1002/prot.24305. Epub 2013 Jul 23.

PMID:
23606130
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Characterization of transport proteins for aromatic compounds derived from lignin: benzoate derivative binding proteins.

Michalska K, Chang C, Mack JC, Zerbs S, Joachimiak A, Collart FR.

J Mol Biol. 2012 Nov 2;423(4):555-75. doi: 10.1016/j.jmb.2012.08.017. Epub 2012 Aug 25.

PMID:
22925578
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

BowStrap v1.0: Assigning statistical significance to expressed genes using short-read transcriptome data.

Larsen PE, Collart FR.

BMC Res Notes. 2012 Jun 7;5:275. doi: 10.1186/1756-0500-5-275.

PMID:
22676709
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Biophysical and structural characterization of a sequence-diverse set of solute-binding proteins for aromatic compounds.

Pietri R, Zerbs S, Corgliano DM, Allaire M, Collart FR, Miller LM.

J Biol Chem. 2012 Jul 6;287(28):23748-56. doi: 10.1074/jbc.M112.352385. Epub 2012 May 10.

PMID:
22577139
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Environment sensing and response mediated by ABC transporters.

Giuliani SE, Frank AM, Corgliano DM, Seifert C, Hauser L, Collart FR.

BMC Genomics. 2011 Jun 15;12 Suppl 1:S8. doi: 10.1186/1471-2164-12-S1-S8.

PMID:
21810210
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Using next generation transcriptome sequencing to predict an ectomycorrhizal metabolome.

Larsen PE, Sreedasyam A, Trivedi G, Podila GK, Cseke LJ, Collart FR.

BMC Syst Biol. 2011 May 13;5:70. doi: 10.1186/1752-0509-5-70.

PMID:
21569493
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset.

Larsen PE, Collart FR, Field D, Meyer F, Keegan KP, Henry CS, McGrath J, Quinn J, Gilbert JA.

Microb Inform Exp. 2011 Jun 14;1(1):4. doi: 10.1186/2042-5783-1-4.

PMID:
22587810
[PubMed]
Free PMC Article
11.

Using deep RNA sequencing for the structural annotation of the Laccaria bicolor mycorrhizal transcriptome.

Larsen PE, Trivedi G, Sreedasyam A, Lu V, Podila GK, Collart FR.

PLoS One. 2010 Jul 6;5(7):e9780. doi: 10.1371/journal.pone.0009780.

PMID:
20625404
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Bacterial systems for production of heterologous proteins.

Zerbs S, Frank AM, Collart FR.

Methods Enzymol. 2009;463:149-68. doi: 10.1016/S0076-6879(09)63012-3. Review.

PMID:
19892172
[PubMed - indexed for MEDLINE]
13.

Crystal structures of YkuI and its complex with second messenger cyclic Di-GMP suggest catalytic mechanism of phosphodiester bond cleavage by EAL domains.

Minasov G, Padavattan S, Shuvalova L, Brunzelle JS, Miller DJ, Baslé A, Massa C, Collart FR, Schirmer T, Anderson WF.

J Biol Chem. 2009 May 8;284(19):13174-84. doi: 10.1074/jbc.M808221200. Epub 2009 Feb 24.

PMID:
19244251
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Genomic reconstruction of Shewanella oneidensis MR-1 metabolism reveals a previously uncharacterized machinery for lactate utilization.

Pinchuk GE, Rodionov DA, Yang C, Li X, Osterman AL, Dervyn E, Geydebrekht OV, Reed SB, Romine MF, Collart FR, Scott JH, Fredrickson JK, Beliaev AS.

Proc Natl Acad Sci U S A. 2009 Feb 24;106(8):2874-9. doi: 10.1073/pnas.0806798106. Epub 2009 Feb 5.

PMID:
19196979
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Functional assignment of solute-binding proteins of ABC transporters using a fluorescence-based thermal shift assay.

Giuliani SE, Frank AM, Collart FR.

Biochemistry. 2008 Dec 30;47(52):13974-84. doi: 10.1021/bi801648r.

PMID:
19063603
[PubMed - indexed for MEDLINE]
16.

"System 48" high-throughput cloning and protein expression analysis.

Abdullah JM, Joachimiak A, Collart FR.

Methods Mol Biol. 2009;498:117-27. doi: 10.1007/978-1-59745-196-3_8.

PMID:
18988022
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Addressing Shewanella oneidensis "cytochromome": the first step towards high-throughput expression of cytochromes c.

Londer YY, Giuliani SE, Peppler T, Collart FR.

Protein Expr Purif. 2008 Nov;62(1):128-37. doi: 10.1016/j.pep.2008.06.014. Epub 2008 Jul 8.

PMID:
18657620
[PubMed - indexed for MEDLINE]
18.

Efficient site-specific labeling of proteins via cysteines.

Kim Y, Ho SO, Gassman NR, Korlann Y, Landorf EV, Collart FR, Weiss S.

Bioconjug Chem. 2008 Mar;19(3):786-91. doi: 10.1021/bc7002499. Epub 2008 Feb 15.

PMID:
18275130
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Crystal structure of an apo form of Shigella flexneri ArsH protein with an NADPH-dependent FMN reductase activity.

Vorontsov II, Minasov G, Brunzelle JS, Shuvalova L, Kiryukhina O, Collart FR, Anderson WF.

Protein Sci. 2007 Nov;16(11):2483-90.

PMID:
17962405
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Development of BIATECH-54 standard mixtures for assessment of protein identification and relative expression.

Kolker E, Hogan JM, Higdon R, Kolker N, Landorf E, Yakunin AF, Collart FR, van Belle G.

Proteomics. 2007 Oct;7(20):3693-8. Review.

PMID:
17890649
[PubMed - indexed for MEDLINE]
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