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Items: 28

1.

Publisher Correction: Genomic analysis of the emergence of drug-resistant strains of Mycobacterium tuberculosis in the Middle East.

Alyamani EJ, Marcus SA, Ramirez-Busby SM, Hansen C, Rashid J, El-Kholy A, Spalink D, Valafar F, Almehdar HA, Jiman-Fatani AA, Khiyami MA, Talaat AM.

Sci Rep. 2019 Dec 27;9(1):20268. doi: 10.1038/s41598-019-55790-8.

2.

Functional Connectivities Are More Informative Than Anatomical Variables in Diagnostic Classification of Autism.

Eill A, Jahedi A, Gao Y, Kohli JS, Fong CH, Solders S, Carper RA, Valafar F, Bailey BA, Müller RA.

Brain Connect. 2019 Oct;9(8):604-612. doi: 10.1089/brain.2019.0689. Epub 2019 Aug 23.

PMID:
31328535
3.

Genomic analysis of the emergence of drug-resistant strains of Mycobacterium tuberculosis in the Middle East.

Alyamani EJ, Marcus SA, Ramirez-Busby SM, Hansen C, Rashid J, El-Kholy A, Spalink D, Valafar F, Almehdar HA, A Jiman-Fatani A, Khiyami MA, Talaat AM.

Sci Rep. 2019 Mar 14;9(1):4474. doi: 10.1038/s41598-019-41162-9. Erratum in: Sci Rep. 2019 Dec 27;9(1):20268.

4.

Modeling the structural origins of drug resistance to isoniazid via key mutations in Mycobacterium tuberculosis catalase-peroxidase, KatG.

Marney MW, Metzger RP, Hecht D, Valafar F.

Tuberculosis (Edinb). 2018 Jan;108:155-162. doi: 10.1016/j.tube.2017.11.007. Epub 2017 Nov 22.

PMID:
29523317
5.

A Multinational Analysis of Mutations and Heterogeneity in PZase, RpsA, and PanD Associated with Pyrazinamide Resistance in M/XDR Mycobacterium tuberculosis.

Ramirez-Busby SM, Rodwell TC, Fink L, Catanzaro D, Jackson RL, Pettigrove M, Catanzaro A, Valafar F.

Sci Rep. 2017 Jun 19;7(1):3790. doi: 10.1038/s41598-017-03452-y.

6.

SMRT genome assembly corrects reference errors, resolving the genetic basis of virulence in Mycobacterium tuberculosis.

Elghraoui A, Modlin SJ, Valafar F.

BMC Genomics. 2017 Apr 17;18(1):302. doi: 10.1186/s12864-017-3687-5.

7.

Pathogenesis of multi drug-resistant and extensively drug-resistant tuberculosis as a determinant of future treatment success.

Valafar F.

Int J Mycobacteriol. 2016 Dec;5 Suppl 1:S64-S65. doi: 10.1016/j.ijmyco.2016.11.017. Epub 2016 Nov 25. No abstract available.

8.

Structure-based analysis of Bacilli and plasmid dihydrofolate reductase evolution.

Alotaibi M, Reyes BD, Le T, Luong P, Valafar F, Metzger RP, Fogel GB, Hecht D.

J Mol Graph Model. 2017 Jan;71:135-153. doi: 10.1016/j.jmgm.2016.10.011. Epub 2016 Nov 22.

9.

Frequency and Distribution of Tuberculosis Resistance-Associated Mutations between Mumbai, Moldova, and Eastern Cape.

Georghiou SB, Seifert M, Catanzaro D, Garfein RS, Valafar F, Crudu V, Rodrigues C, Victor TC, Catanzaro A, Rodwell TC.

Antimicrob Agents Chemother. 2016 Jun 20;60(7):3994-4004. doi: 10.1128/AAC.00222-16. Print 2016 Jul.

10.

Performance Comparison of Three Rapid Tests for the Diagnosis of Drug-Resistant Tuberculosis.

Catanzaro A, Rodwell TC, Catanzaro DG, Garfein RS, Jackson RL, Seifert M, Georghiou SB, Trollip A, Groessl E, Hillery N, Crudu V, Victor TC, Rodrigues C, Lin GS, Valafar F, Desmond E, Eisenach K.

PLoS One. 2015 Aug 31;10(8):e0136861. doi: 10.1371/journal.pone.0136861. eCollection 2015.

11.

Novel katG mutations causing isoniazid resistance in clinical M. tuberculosis isolates.

Torres JN, Paul LV, Rodwell TC, Victor TC, Amallraja AM, Elghraoui A, Goodmanson AP, Ramirez-Busby SM, Chawla A, Zadorozhny V, Streicher EM, Sirgel FA, Catanzaro D, Rodrigues C, Gler MT, Crudu V, Catanzaro A, Valafar F.

Emerg Microbes Infect. 2015 Jul;4(7):e42. doi: 10.1038/emi.2015.42. Epub 2015 Jul 15.

12.

Systematic review of mutations in pyrazinamidase associated with pyrazinamide resistance in Mycobacterium tuberculosis clinical isolates.

Ramirez-Busby SM, Valafar F.

Antimicrob Agents Chemother. 2015 Sep;59(9):5267-77. doi: 10.1128/AAC.00204-15. Epub 2015 Jun 15. Review.

13.

Detection of Low-Level Mixed-Population Drug Resistance in Mycobacterium tuberculosis Using High Fidelity Amplicon Sequencing.

Colman RE, Schupp JM, Hicks ND, Smith DE, Buchhagen JL, Valafar F, Crudu V, Romancenco E, Noroc E, Jackson L, Catanzaro DG, Rodwell TC, Catanzaro A, Keim P, Engelthaler DM.

PLoS One. 2015 May 13;10(5):e0126626. doi: 10.1371/journal.pone.0126626. eCollection 2015.

14.

Phenotypic and genotypic diversity in a multinational sample of drug-resistant Mycobacterium tuberculosis isolates.

Garfein RS, Catanzaro DG, Rodwell TC, Avalos E, Jackson RL, Kaping J, Evasco H, Rodrigues C, Crudu V, Lin SY, Groessl E, Hillery N, Trollip A, Ganiats T, Victor TC, Eisenach K, Valafar F, Channick J, Qian L, Catanzaro A.

Int J Tuberc Lung Dis. 2015 Apr;19(4):420-7. doi: 10.5588/ijtld.14.0488. Erratum in: Int J Tuberc Lung Dis. 2015 Jul;19(7):874. Groessel, E [corrected to Groessl, E].

15.

Prognostic significance of novel katG mutations in Mycobacterium tuberculosis.

Valafar F, Ramirez-Busby SM, Torres J, Paul LV, Rodwell TC, Victor TC, Rodrigues C, Gler MT, Crudu V, Catanzaro T.

Int J Mycobacteriol. 2015 Mar;4(Suppl 1):51-52. Epub 2015 Jan 7.

16.

The Global Consortium for Drug-resistant Tuberculosis Diagnostics (GCDD): design of a multi-site, head-to-head study of three rapid tests to detect extensively drug-resistant tuberculosis.

Hillery N, Groessl EJ, Trollip A, Catanzaro D, Jackson L, Rodwell TC, Garfein RS, Lin SY, Eisenach K, Ganiats TG, Park D, Valafar F, Rodrigues C, Crudu V, Victor TC, Catanzaro A.

Trials. 2014 Nov 6;15:434. doi: 10.1186/1745-6215-15-434.

17.

Predicting extensively drug-resistant Mycobacterium tuberculosis phenotypes with genetic mutations.

Rodwell TC, Valafar F, Douglas J, Qian L, Garfein RS, Chawla A, Torres J, Zadorozhny V, Kim MS, Hoshide M, Catanzaro D, Jackson L, Lin G, Desmond E, Rodrigues C, Eisenach K, Victor TC, Ismail N, Crudu V, Gler MT, Catanzaro A.

J Clin Microbiol. 2014 Mar;52(3):781-9. doi: 10.1128/JCM.02701-13. Epub 2013 Dec 18.

18.

Empirical comparison of cross-platform normalization methods for gene expression data.

Rudy J, Valafar F.

BMC Bioinformatics. 2011 Dec 7;12:467. doi: 10.1186/1471-2105-12-467.

19.

Improving reverse vaccinology with a machine learning approach.

Bowman BN, McAdam PR, Vivona S, Zhang JX, Luong T, Belew RK, Sahota H, Guiney D, Valafar F, Fierer J, Woelk CH.

Vaccine. 2011 Oct 19;29(45):8156-64. doi: 10.1016/j.vaccine.2011.07.142. Epub 2011 Aug 22.

PMID:
21864619
20.

The Gene Wiki: community intelligence applied to human gene annotation.

Huss JW 3rd, Lindenbaum P, Martone M, Roberts D, Pizarro A, Valafar F, Hogenesch JB, Su AI.

Nucleic Acids Res. 2010 Jan;38(Database issue):D633-9. doi: 10.1093/nar/gkp760. Epub 2009 Sep 15.

21.

Parallelization and optimization of genetic analyses in isolation by distance web service.

Turner JL, Kelley ST, Otto JS, Valafar F, Bohonak AJ.

BMC Genet. 2009 Jun 19;10:28. doi: 10.1186/1471-2156-10-28.

22.

A gene wiki for community annotation of gene function.

Huss JW 3rd, Orozco C, Goodale J, Wu C, Batalov S, Vickers TJ, Valafar F, Su AI.

PLoS Biol. 2008 Jul 8;6(7):e175. doi: 10.1371/journal.pbio.0060175. No abstract available.

23.

Bioinformatic analyses of mammalian 5'-UTR sequence properties of mRNAs predicts alternative translation initiation sites.

Wegrzyn JL, Drudge TM, Valafar F, Hook V.

BMC Bioinformatics. 2008 May 8;9:232. doi: 10.1186/1471-2105-9-232.

24.
25.

Pattern recognition techniques in microarray data analysis: a survey.

Valafar F.

Ann N Y Acad Sci. 2002 Dec;980:41-64. Review.

PMID:
12594081
26.

Datamining protein structure databanks for crystallization patterns of proteins.

Valafar H, Prestegard JH, Valafar F.

Ann N Y Acad Sci. 2002 Dec;980:13-22.

PMID:
12594078
27.

Predicting the effectiveness of hydroxyurea in individual sickle cell anemia patients.

Valafar H, Valafar F, Darvill A, Albersheim P, Kutlar A, Woods KF, Hardin J.

Artif Intell Med. 2000 Feb;18(2):133-48.

PMID:
10648847

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