Publications by authors named "Colin Logie"

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Transcriptomic profiling of osteoarthritis synovial macrophages reveals a tolerized phenotype compounded by a weak corticosteroid response.
Cheng Wang, Ruben De Francesco, Lieke A Lamers, Sybren Rinzema, Siebren Frölich, Colin Logie

Rheumatology (Oxford)· February 2025

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Quantification of absolute transcription factor binding affinities in the native chromatin context using BANC-seq.
Hannah K Neikes, Katarzyna W Kliza, Cathrin Gräwe, Roelof A Wester, Pascal W T C Jansen, Colin Logie

Nat Biotechnol· December 2023

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Corticosteroid-induced chromatin loop dynamics at the FKBP5 gene.
Cheng Wang, Freek Manders, Laszlo Groh, Roel Oldenkamp, Colin Logie

Ann N Y Acad Sci· November 2023

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The Gene Ontology knowledgebase in 2023.

Genetics· May 2023

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The gene regulation knowledge commons: the action area of GREEKC.
Martin Kuiper, Joseph Bonello, Jesualdo T Fernández-Breis, Philipp Bucher, Matthias E Futschik, Colin Logie

Biochim Biophys Acta Gene Regul Mech· January 2022

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From why to how; The gene expression knowledge commons.
Colin Logie

Biochim Biophys Acta Gene Regul Mech· January 2022

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Gene Ontology representation for transcription factor functions.
Pascale Gaudet, Colin Logie, Ruth C Lovering, Martin Kuiper, Astrid Lægreid

Biochim Biophys Acta Gene Regul Mech· December 2021

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A GO catalogue of human DNA-binding transcription factors.
Ruth C Lovering, Pascale Gaudet, Marcio L Acencio, Alex Ignatchenko, Arttu Jolma, Colin Logie

Biochim Biophys Acta Gene Regul Mech· December 2021

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Formalization of gene regulation knowledge using ontologies and gene ontology causal activity models.
Belén Juanes Cortés, José Antonio Vera-Ramos, Ruth C Lovering, Pascale Gaudet, Astrid Laegreid, Colin Logie

Biochim Biophys Acta Gene Regul Mech· December 2021

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Retinoic acid signaling drives differentiation toward the absorptive lineage in colorectal cancer.
Roelof A Wester, Lisa van Voorthuijsen, Hannah K Neikes, Jelmer J Dijkstra, Lieke A Lamers, Colin Logie

iScience· December 2021

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Sequence Ontology terminology for gene regulation.
David W Sant, Michael Sinclair, Christopher J Mungall, Stefan Schulz, Daniel Zerbino, Colin Logie

Biochim Biophys Acta Gene Regul Mech· October 2021

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Integration of transcription coregulator complexes with sequence-specific DNA-binding factor interactomes.
Niels Velthuijs, Birgit Meldal, Quinte Geessinck, Pablo Porras, Yulia Medvedeva, Colin Logie

Biochim Biophys Acta Gene Regul Mech· October 2021

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Fibronectin-functionalization of 3D collagen networks supports immune tolerance and inflammation suppression in human monocyte-derived macrophages.
Colin Logie, Tom van Schaik, Tilo Pompe, Katja Pietsch

Biomaterials· January 2021

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Spatial patterns of CTCF sites define the anatomy of TADs and their boundaries.
Luca Nanni, Stefano Ceri, Colin Logie

Genome Biol· August 2020

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Underreported and unknown student harassment at the Faculty of Science.
Laura Jussen, Toine Lagro-Janssen, Joke Leenders, Colin Logie, Rachel Mijdam

PLoS One· December 2019

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The alarmin S100A9 hampers osteoclast differentiation from human circulating precursors by reducing the expression of RANK.
Irene Di Ceglie, Arjen B Blom, Robab Davar, Colin Logie, Joost H A Martens

FASEB J· September 2019

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Publisher Correction: Epigenetic modulation of a hardwired 3D chromatin landscape in two naive states of pluripotency.
Yaser Atlasi, Wout Megchelenbrink, Tianran Peng, Ehsan Habibi, Onkar Joshi, Colin Logie

Nat Cell Biol· July 2019

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Epigenetic modulation of a hardwired 3D chromatin landscape in two naive states of pluripotency.
Yaser Atlasi, Wout Megchelenbrink, Tianran Peng, Ehsan Habibi, Onkar Joshi, Colin Logie

Nat Cell Biol· May 2019

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Extensive epigenomic integration of the glucocorticoid response in primary human monocytes and in vitro derived macrophages.
Cheng Wang, Luca Nanni, Boris Novakovic, Wout Megchelenbrink, Tatyana Kuznetsova, Colin Logie

Sci Rep· February 2019

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Mutant p63 Affects Epidermal Cell Identity through Rewiring the Enhancer Landscape.
Jieqiong Qu, Sabine E J Tanis, Jos P H Smits, Evelyn N Kouwenhoven, Martin Oti, Colin Logie

Cell Rep· December 2018

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Dendritic Cells Actively Limit Interleukin-10 Production Under Inflammatory Conditions DC-SCRIPT and Dual-Specificity Phosphatase 4.
Jonas Nørskov Søndergaard, Simon J van Heeringen, Maaike W G Looman, Chunling Tang, Vassilis Triantis, Colin Logie

Front Immunol· June 2018

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Combined HAT/EZH2 modulation leads to cancer-selective cell death.
Francesca Petraglia, Abhishek A Singh, Vincenzo Carafa, Angela Nebbioso, Mariarosaria Conte, Colin Logie

Oncotarget· May 2018

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Multi-omics profiling reveals a distinctive epigenome signature for high-risk acute promyelocytic leukemia.
Abhishek A Singh, Francesca Petraglia, Angela Nebbioso, Guoqiang Yi, Mariarosaria Conte, Colin Logie

Oncotarget· May 2018

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HDAC11 is a regulator of diverse immune functions.
Cansu Yanginlar, Colin Logie

Biochim Biophys Acta Gene Regul Mech· January 2018

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We Can Still Be Friends: IFN-γ Breaks Up Macrophage Enhancers.
Boris Novakovic, Cheng Wang, Colin Logie

Immunity· August 2017

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