MotifLab statistics

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MotifLab specifications

Information


Unique identifier OMICS_00486
Name MotifLab
Software type Toolkit/Suite
Interface Command line interface, Graphical user interface
Restrictions to use None
Input format FASTA, BED, GFF
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Advanced
Version 1.08
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Kjetil Klepper

Publication for MotifLab

MotifLab citations

 (3)
library_books

c Myb Binding Sites in Haematopoietic Chromatin Landscapes

2015
PLoS One
PMCID: 4514710
PMID: 26208222
DOI: 10.1371/journal.pone.0133280

[…] cell-types where c-Myb is upregulated: erythroleukaemia (K562) and promyelocytic leukaemia (NB4) [].To predict potential c-Myb binding sites (c-Myb footprints), we first scanned the human genome with MotifLab [] using four c-Myb motifs from the TRANSFAC database []. We identified more than 19 million c-Myb motif instances and filtered these against cell-specific DNase I footprints from the six dif […]

library_books

Otx2 ChIP seq Reveals Unique and Redundant Functions in the Mature Mouse Retina

2014
PLoS One
PMCID: 3928427
PMID: 24558479
DOI: 10.1371/journal.pone.0089110

[…] Motiflab tool was used to load UCSC tracks and evaluate region coverage of each criterion. Peaks were then sorted according to these criteria. Global mean rank varied according to the number of peaks […]

library_books

Bioinformatic analysis reveals an evolutional selection for DNA:RNA hybrid G quadruplex structures as putative transcription regulatory elements in warm blooded animals

2013
Nucleic Acids Res
PMCID: 3905843
PMID: 23999096
DOI: 10.1093/nar/gkt781

[…] Motif masking for CpG islands and G-rich transcription factor binding sites (TFBSs) was conducted using the software MotifLab version 1.07 (). A list of IDs for the protein-coding genes in human (GRCh37.p11) was obtained from the Ensembl genes database (release 72). A CpG island BED file for human was downloaded usi […]

Citations

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MotifLab institution(s)
Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology, Trondheim, Norway

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