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Items: 1 to 20 of 37

1.

From data repositories to submission portals: rethinking the role of domain-specific databases in CollecTF.

Kılıç S, Sagitova DM, Wolfish S, Bely B, Courtot M, Ciufo S, Tatusova T, O'Donovan C, Chibucos MC, Martin MJ, Erill I.

Database (Oxford). 2016 Apr 25;2016. pii: baw055. doi: 10.1093/database/baw055. Print 2016.

2.

Genomic characterization and comparison of seven Myoviridae bacteriophage infecting Bacillus thuringiensis.

Sauder AB, Quinn MR, Brouillette A, Caruso S, Cresawn S, Erill I, Lewis L, Loesser-Casey K, Pate M, Scott C, Stockwell S, Temple L.

Virology. 2016 Feb;489:243-51. doi: 10.1016/j.virol.2015.12.012. Epub 2016 Jan 14.

PMID:
26773385
3.

Erratum for Erill and Caruso, Complete Genome Sequence of Bacillus cereus Group Phage TsarBomba.

Erill I, Caruso SM.

Genome Announc. 2015 Nov 19;3(6). pii: e01458-15. doi: 10.1128/genomeA.01458-15. No abstract available.

4.

Genome Sequences of Two Bacillus cereus Group Bacteriophages, Eyuki and AvesoBmore.

Erill I, Caruso SM.

Genome Announc. 2015 Oct 15;3(5). pii: e01199-15. doi: 10.1128/genomeA.01199-15.

5.

Complete Genome Sequence of Bacillus cereus Group Phage TsarBomba.

Erill I, Caruso SM.

Genome Announc. 2015 Oct 15;3(5). pii: e01178-15. doi: 10.1128/genomeA.01178-15. Erratum in: Genome Announc. 2015;3(6). pii: e01458-15. doi: 10.1128/genomeA.01458-15.

6.

Diagnostic yield of targeted next generation sequencing in various cancer types: an information-theoretic approach.

Hagemann IS, O'Neill PK, Erill I, Pfeifer JD.

Cancer Genet. 2015 Sep;208(9):441-7. doi: 10.1016/j.cancergen.2015.05.030. Epub 2015 May 29.

PMID:
26227479
7.

Every Site Counts: Submitting Transcription Factor-Binding Site Information through the CollecTF Portal.

Erill I.

J Bacteriol. 2015 Aug 1;197(15):2454-7. doi: 10.1128/JB.00031-15. Epub 2015 May 26.

8.

An SOS Regulon under Control of a Noncanonical LexA-Binding Motif in the Betaproteobacteria.

Sanchez-Alberola N, Campoy S, Emerson D, Barbé J, Erill I.

J Bacteriol. 2015 Aug;197(16):2622-30. doi: 10.1128/JB.00035-15. Epub 2015 May 18.

9.

Identification and characterization of VpsR and VpsT binding sites in Vibrio cholerae.

Zamorano-Sánchez D, Fong JC, Kilic S, Erill I, Yildiz FH.

J Bacteriol. 2015 Apr;197(7):1221-35. doi: 10.1128/JB.02439-14. Epub 2015 Jan 26.

10.

Informational requirements for transcriptional regulation.

O'Neill PK, Forder R, Erill I.

J Comput Biol. 2014 May;21(5):373-84. doi: 10.1089/cmb.2014.0032. Epub 2014 Apr 1.

11.

Characterization of the SOS meta-regulon in the human gut microbiome.

Cornish JP, Sanchez-Alberola N, O'Neill PK, O'Keefe R, Gheba J, Erill I.

Bioinformatics. 2014 May 1;30(9):1193-7. doi: 10.1093/bioinformatics/btt753. Epub 2014 Jan 8.

12.

Genome-scale analyses of Escherichia coli and Salmonella enterica AraC reveal noncanonical targets and an expanded core regulon.

Stringer AM, Currenti S, Bonocora RP, Baranowski C, Petrone BL, Palumbo MJ, Reilly AA, Zhang Z, Erill I, Wade JT.

J Bacteriol. 2014 Feb;196(3):660-71. doi: 10.1128/JB.01007-13. Epub 2013 Nov 22.

13.

CollecTF: a database of experimentally validated transcription factor-binding sites in Bacteria.

Kiliç S, White ER, Sagitova DM, Cornish JP, Erill I.

Nucleic Acids Res. 2014 Jan;42(Database issue):D156-60. doi: 10.1093/nar/gkt1123. Epub 2013 Nov 14.

14.

scnRCA: a novel method to detect consistent patterns of translational selection in mutationally-biased genomes.

O'Neill PK, Or M, Erill I.

PLoS One. 2013 Oct 7;8(10):e76177. doi: 10.1371/journal.pone.0076177. eCollection 2013.

15.

Inference of self-regulated transcriptional networks by comparative genomics.

Cornish JP, Matthews F, Thomas JR, Erill I.

Evol Bioinform Online. 2012;8:449-61. doi: 10.4137/EBO.S9205. Epub 2012 Aug 6.

16.

BioWord: a sequence manipulation suite for Microsoft Word.

Anzaldi LJ, Muñoz-Fernández D, Erill I.

BMC Bioinformatics. 2012 Jun 7;13:124. doi: 10.1186/1471-2105-13-124.

17.

Analysis of the SOS response of Vibrio and other bacteria with multiple chromosomes.

Sanchez-Alberola N, Campoy S, Barbé J, Erill I.

BMC Genomics. 2012 Feb 3;13:58. doi: 10.1186/1471-2164-13-58.

18.

Prevalence of SOS-mediated control of integron integrase expression as an adaptive trait of chromosomal and mobile integrons.

Cambray G, Sanchez-Alberola N, Campoy S, Guerin E, Da Re S, González-Zorn B, Ploy MC, Barbé J, Mazel D, Erill I.

Mob DNA. 2011 Apr 30;2(1):6. doi: 10.1186/1759-8753-2-6.

19.

xFITOM: a generic GUI tool to search for transcription factor binding sites.

Bhargava N, Erill I.

Bioinformation. 2010 Jul 6;5(2):49-51.

20.

Relative codon adaptation: a generic codon bias index for prediction of gene expression.

Fox JM, Erill I.

DNA Res. 2010 Jun;17(3):185-96. doi: 10.1093/dnares/dsq012. Epub 2010 May 7.

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