What are DNA sequence motifs?

P D'haeseleer - Nature biotechnology, 2006 - nature.com
Sequence motifs are becoming increasingly important in the analysis of gene regulation.
How do we define sequence motifs, and why should we use sequence logos instead of …

Transcriptional regulation of the cyclin D1 gene at a glance

EA Klein, RK Assoian - Journal of cell science, 2008 - journals.biologists.com
3854 growth factors. The mitogen-activated protein kinases (MAPKs) play a major role in
mitogenic signaling, and the canonical Ras-Raf-MEK [MAPK and extracellular signal …

JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles

JA Castro-Mondragon, R Riudavets-Puig… - Nucleic acids …, 2022 - academic.oup.com
Abstract JASPAR (http://jaspar. genereg. net/) is an open-access database containing
manually curated, non-redundant transcription factor (TF) binding profiles for TFs across six …

A comparative genomics multitool for scientific discovery and conservation

Nature, 2020 - nature.com
Abstract The Zoonomia Project is investigating the genomics of shared and specialized traits
in eutherian mammals. Here we provide genome assemblies for 131 species, of which all …

JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework

A Khan, O Fornes, A Stigliani, M Gheorghe… - Nucleic acids …, 2018 - academic.oup.com
Abstract JASPAR (http://jaspar. genereg. net) is an open-access database of curated, non-
redundant transcription factor (TF)-binding profiles stored as position frequency matrices …

JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles

A Mathelier, O Fornes, DJ Arenillas, C Chen… - Nucleic acids …, 2016 - academic.oup.com
Abstract JASPAR (http://jaspar. genereg. net) is an open-access database storing curated,
non-redundant transcription factor (TF) binding profiles representing transcription factor …

JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles

A Mathelier, X Zhao, AW Zhang, F Parcy… - Nucleic acids …, 2014 - academic.oup.com
Abstract JASPAR (http://jaspar. genereg. net) is the largest open-access database of matrix-
based nucleotide profiles describing the binding preference of transcription factors from …

A small-cell lung cancer genome with complex signatures of tobacco exposure

ED Pleasance, PJ Stephens, S O'Meara, DJ McBride… - Nature, 2010 - nature.com
Cancer is driven by mutation. Worldwide, tobacco smoking is the principal lifestyle exposure
that causes cancer, exerting carcinogenicity through> 60 chemicals that bind and mutate …

Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs

J Ponjavic, CP Ponting, G Lunter - Genome research, 2007 - genome.cshlp.org
Long transcripts that do not encode protein have only rarely been the subject of
experimental scrutiny. Presumably, this is owing to the current lack of evidence of their …

JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles

E Portales-Casamar, S Thongjuea… - Nucleic acids …, 2010 - academic.oup.com
ABSTRACT JASPAR (http://jaspar. genereg. net) is the leading open-access database of
matrix profiles describing the DNA-binding patterns of transcription factors (TFs) and other …