Imperial College London
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ProfessorBorisLenhard

Faculty of Medicine, Institute of Clinical Sciences

Professor of Computational Biology
 
 
 
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Contact

 

+44 (0)20 7594 0911b.lenhard Website

 
 
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Assistant

 

Mr Alastair Douglas Ivor Williams +44 (0)20 3313 4318

 
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Location

 

6.12CLMS BuildingHammersmith Campus

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Summary

 

Publications

Citation

BibTex format

@article{Khan:2017:nar/gkx1126,
author = {Khan, A and Fornes, O and Stigliani, A and Gheorghe, M and Castro-Mondragon, JA and van, der Lee R and Bessy, A and Chèneby, J and Kulkarni, SR and Tan, G and Baranasic, D and Arenillas, DJ and Sandelin, A and Vandepoele, K and Lenhard, B and Ballester, B and Wasserman, WW and Parcy, F and Mathelier, A},
doi = {nar/gkx1126},
journal = {Nucleic Acids Research},
pages = {D260--D266},
title = {JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework.},
url = {http://dx.doi.org/10.1093/nar/gkx1126},
volume = {46},
year = {2017}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - JASPAR (http://jaspar.genereg.net) is an open-access database of curated, non-redundant transcription factor (TF)-binding profiles stored as position frequency matrices (PFMs) and TF flexible models (TFFMs) for TFs across multiple species in six taxonomic groups. In the 2018 release of JASPAR, the CORE collection has been expanded with 322 new PFMs (60 for vertebrates and 262 for plants) and 33 PFMs were updated (24 for vertebrates, 8 for plants and 1 for insects). These new profiles represent a 30% expansion compared to the 2016 release. In addition, we have introduced 316 TFFMs (95 for vertebrates, 218 for plants and 3 for insects). This release incorporates clusters of similar PFMs in each taxon and each TF class per taxon. The JASPAR 2018 CORE vertebrate collection of PFMs was used to predict TF-binding sites in the human genome. The predictions are made available to the scientific community through a UCSC Genome Browser track data hub. Finally, this update comes with a new web framework with an interactive and responsive user-interface, along with new features. All the underlying data can be retrieved programmatically using a RESTful API and through the JASPAR 2018 R/Bioconductor package.
AU  - Khan,A
AU  - Fornes,O
AU  - Stigliani,A
AU  - Gheorghe,M
AU  - Castro-Mondragon,JA
AU  - van,der Lee R
AU  - Bessy,A
AU  - Chèneby,J
AU  - Kulkarni,SR
AU  - Tan,G
AU  - Baranasic,D
AU  - Arenillas,DJ
AU  - Sandelin,A
AU  - Vandepoele,K
AU  - Lenhard,B
AU  - Ballester,B
AU  - Wasserman,WW
AU  - Parcy,F
AU  - Mathelier,A
DO  - nar/gkx1126
EP  - 266
PY  - 2017///
SN  - 0305-1048
SP  - 260
TI  - JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework.
T2  - Nucleic Acids Research
UR  - http://dx.doi.org/10.1093/nar/gkx1126
UR  - http://hdl.handle.net/10044/1/53819
VL  - 46
ER  -
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