Decoding the function of bivalent chromatin in development and cancer von Kumar, Dhirendra, Cinghu, Senthilkumar, Oldfield, Andrew J., Yang, Pengyi, Jothi, Raja

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Histone-Fold Domain Protein NF-Y Promotes Chromatin Accessibility for Cell Type-Specific Master Transcription Factors von Oldfield, Andrew J., Yang, Pengyi, Conway, Amanda E., Cinghu, Senthilkumar, Freudenberg, Johannes M., Yellaboina, Sailu, Jothi, Raja

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IRFinder-S: a comprehensive suite to discover and explore intron retention von Lorenzi, Claudio, Barriere, Sylvain, Arnold, Katharina, Luco, Reini F., Oldfield, Andrew J., Ritchie, William

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NF-Y controls fidelity of transcription initiation at gene promoters through maintenance of the nucleosome-depleted region von Oldfield, Andrew J., Henriques, Telmo, Kumar, Dhirendra, Burkholder, Adam B., Cinghu, Senthilkumar, Paulet, Damien, Bennett, Brian D., Yang, Pengyi, Scruggs, Benjamin S., Lavender, Christopher A., Rivals, Eric, Adelman, Karen, Jothi, Raja

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TALC: Transcript-level Aware Long-read Correction von Broseus, Lucile, Thomas, Aubin, Oldfield, Andrew J, Severac, Dany, Dubois, Emeric, Ritchie, William

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SETDB1/NSD-dependent H3K9me3/H3K36me3 dual heterochromatin maintains gene expression profiles by bookmarking poised enhancers von Barral, Amandine, Pozo, Gabrielle, Ducrot, Lucas, Papadopoulos, Giorgio L., Sauzet, Sandrine, Oldfield, Andrew J., Cavalli, Giacomo, Déjardin, Jérôme

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Histone marks regulate the epithelial-to-mesenchymal transition via alternative splicing von Segelle, Alexandre, Núñez-Álvarez, Yaiza, Oldfield, Andrew J., Webb, Kimberly M., Voigt, Philipp, Luco, Reini F.

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Intragenic Enhancers Attenuate Host Gene Expression von Cinghu, Senthilkumar, Yang, Pengyi, Kosak, Justin P., Conway, Amanda E., Kumar, Dhirendra, Oldfield, Andrew J., Adelman, Karen, Jothi, Raja

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PAD2: interactive exploration of transcription factor genomic colocalization using ChIP-seq data von Kim, Taiyun, Kim, Hani Jieun, Oldfield, Andrew J., Yang, Pengyi

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Transcriptional network dynamics during the progression of pluripotency revealed by integrative statistical learning von Kim, Hani Jieun, Osteil, Pierre, Humphrey, Sean J., Cinghu, Senthilkumar, Oldfield, Andrew J., Patrick, Ellis, Wilkie, Emilie E., Peng, Guangdun, Suo, Shengbao, Jothi, Raja, Tam, Patrick P. L., Yang, Pengyi

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Multi-omic Profiling Reveals Dynamics of the Phased Progression of Pluripotency von Yang, Pengyi, Humphrey, Sean J., Cinghu, Senthilkumar, Pathania, Rajneesh, Oldfield, Andrew J., Kumar, Dhirendra, Perera, Dinuka, Yang, Jean Y.H., James, David E., Mann, Matthias, Jothi, Raja

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A prominent and conserved role for YY1 in Xist transcriptional activation von Makhlouf, Mélanie, Ouimette, Jean-François, Oldfield, Andrew, Navarro, Pablo, Neuillet, Damien, Rougeulle, Claire

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Integrative analysis reveals histone demethylase LSD1 promotes RNA polymerase II pausing von Kim, Hani Jieun, Li, Pishun, Kim, Taiyun, Oldfield, Andrew J., Zheng, Xiaofeng, Yang, Pengyi

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A cell-to-patient machine learning transfer approach uncovers novel basal-like breast cancer prognostic markers amongst alternative splice variants von Villemin, Jean-Philippe, Lorenzi, Claudio, Cabrillac, Marie-Sarah, Oldfield, Andrew, Ritchie, William, Luco, Reini F.

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Molecular coupling of Tsix regulation and pluripotency von Navarro, Pablo, Avner, Philip, Oldfield, Andrew, Legoupi, Julie, Festuccia, Nicola, Dubois, Agnès, Attia, Mikael, Schoorlemmer, Jon, Rougeulle, Claire, Chambers, Ian

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Integrative analysis identifies co-dependent gene expression regulation of BRG1 and CHD7 at distal regulatory sites in embryonic stem cells von Yang, Pengyi, Oldfield, Andrew, Kim, Taiyun, Yang, Andrian, Yang, Jean Yee Hwa, Ho, Joshua W K

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Integrative framework for identification of key cell identity genes uncovers determinants of ES cell identity and homeostasis von Cinghu, Senthilkumar, Yellaboina, Sailu, Freudenberg, Johannes M, Ghosh, Swati, Zheng, Xiaofeng, Oldfield, Andrew J, Lackford, Brad L, Zaykin, Dmitri V, Hu, Guang, Jothi, Raja

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The Central Role of PDR1 in the Foundation of Yeast Drug Resistance von Fardeau, Vivienne, Lelandais, Gaëlle, Oldfield, Andrew, Salin, Héle`ne, Lemoine, Sophie, Garcia, Mathilde, Tanty, Véronique, Le Crom, Stéphane, Jacq, Claude, Devaux, Frédéric

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The Biological and Clinical Significance of Glutaminase in Luminal Breast Cancer von Masisi, Brendah K., El Ansari, Rokaya, Alfarsi, Lutfi, Craze, Madeleine L., Jewa, Natasha, Oldfield, Andrew, Cheung, Hayley, Toss, Michael, Rakha, Emad A., Green, Andrew R.

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A prominent and conserved role for YY1 in Xist transcriptional activation von Makhlouf, Mélanie, Ouimette, Jean-François, Oldfield, Andrew, Navarro Gil, Pablo, Neuillet, Damien, Rougeulle, Claire

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