van Helden J - Search Results

1

Redefining fundamental concepts of transcription initiation in bacteria.

Mejía-Almonte C, Busby SJW, Wade JT, van Helden J, Arkin AP, Stormo GD, Eilbeck K, Palsson BO, Galagan JE, Collado-Vides J. Mejía-Almonte C, et al. Among authors: van helden j. Nat Rev Genet. 2020 Nov;21(11):699-714. doi: 10.1038/s41576-020-0254-8. Epub 2020 Jul 14. Nat Rev Genet. 2020. PMID: 32665585 Free PMC article. Review.

2

Integrating Bacterial ChIP-seq and RNA-seq Data With SnakeChunks.

Rioualen C, Charbonnier-Khamvongsa L, Collado-Vides J, van Helden J. Rioualen C, et al. Among authors: van helden j. Curr Protoc Bioinformatics. 2019 Jun;66(1):e72. doi: 10.1002/cpbi.72. Epub 2019 Feb 20. Curr Protoc Bioinformatics. 2019. PMID: 30786165 Free PMC article.

3

Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies.

van Helden J, André B, Collado-Vides J. van Helden J, et al. J Mol Biol. 1998 Sep 4;281(5):827-42. doi: 10.1006/jmbi.1998.1947. J Mol Biol. 1998. PMID: 9719638

4

A web site for the computational analysis of yeast regulatory sequences.

van Helden J, André B, Collado-Vides J. van Helden J, et al. Yeast. 2000 Jan 30;16(2):177-87. doi: 10.1002/(SICI)1097-0061(20000130)16:2<177::AID-YEA516>3.0.CO;2-9. Yeast. 2000. PMID: 10641039

5

Theoretical and empirical quality assessment of transcription factor-binding motifs.

Medina-Rivera A, Abreu-Goodger C, Thomas-Chollier M, Salgado H, Collado-Vides J, van Helden J. Medina-Rivera A, et al. Among authors: van helden j. Nucleic Acids Res. 2011 Feb;39(3):808-24. doi: 10.1093/nar/gkq710. Epub 2010 Oct 4. Nucleic Acids Res. 2011. PMID: 20923783 Free PMC article.

6

RegulonDB (version 2.0): a database on transcriptional regulation in Escherichia coli.

Salgado H, Santos A, Garza-Ramos U, van Helden J, Díaz E, Collado-Vides J. Salgado H, et al. Among authors: van helden j. Nucleic Acids Res. 1999 Jan 1;27(1):59-60. doi: 10.1093/nar/27.1.59. Nucleic Acids Res. 1999. PMID: 9847141 Free PMC article.

7

Discovering regulatory elements in non-coding sequences by analysis of spaced dyads.

van Helden J, Rios AF, Collado-Vides J. van Helden J, et al. Nucleic Acids Res. 2000 Apr 15;28(8):1808-18. doi: 10.1093/nar/28.8.1808. Nucleic Acids Res. 2000. PMID: 10734201 Free PMC article.

8

Genome-wide characterization of mammalian promoters with distal enhancer functions.

Dao LTM, Galindo-Albarrán AO, Castro-Mondragon JA, Andrieu-Soler C, Medina-Rivera A, Souaid C, Charbonnier G, Griffon A, Vanhille L, Stephen T, Alomairi J, Martin D, Torres M, Fernandez N, Soler E, van Helden J, Puthier D, Spicuglia S. Dao LTM, et al. Among authors: van helden j. Nat Genet. 2017 Jul;49(7):1073-1081. doi: 10.1038/ng.3884. Epub 2017 Jun 5. Nat Genet. 2017. PMID: 28581502

9

Tuning promoter boundaries improves regulatory motif discovery in nonmodel plants: the peach example.

Ksouri N, Castro-Mondragón JA, Montardit-Tarda F, van Helden J, Contreras-Moreira B, Gogorcena Y. Ksouri N, et al. Among authors: van helden j. Plant Physiol. 2021 Apr 2;185(3):1242-1258. doi: 10.1093/plphys/kiaa091. Plant Physiol. 2021. PMID: 33744946 Free PMC article.

10

Confidence intervals are no salvation from the alleged fickleness of the P value.

van Helden J. van Helden J. Nat Methods. 2016 Jul 28;13(8):605-6. doi: 10.1038/nmeth.3932. Nat Methods. 2016. PMID: 27467719 No abstract available.

Save citations to file

Email citations

Send citations to clipboard

Add to Collections

Add to My Bibliography

Create a file for external citation management software

Your saved search

Your RSS Feed

My Custom Filters

Publication date

Text availability

Article attribute

Article type

Article Language

Species

Sex

Age

Other

147 results

Search Page

Filters