Search Results - "Schwalie, Petra C"

Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages by Schmidt, Dominic, Schwalie, Petra C., Wilson, Michael D., Ballester, Benoit, Gonçalves, Ângela, Kutter, Claudia, Brown, Gordon D., Marshall, Aileen, Flicek, Paul, Odom, Duncan T.

“…CTCF-binding locations represent regulatory sequences that are highly constrained over the course of evolution. To gain insight into how these DNA elements are…”
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ASAP: a web-based platform for the analysis and interactive visualization of single-cell RNA-seq data by Gardeux, Vincent, David, Fabrice P A, Shajkofci, Adrian, Schwalie, Petra C, Deplancke, Bart

“…Single-cell RNA-sequencing (scRNA-seq) allows whole transcriptome profiling of thousands of individual cells, enabling the molecular exploration of tissues at…”
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Five-Vertebrate ChIP-seq Reveals the Evolutionary Dynamics of Transcription Factor Binding by Schmidt, Dominic, Wilson, Michael D, Ballester, Benoit, Schwalie, Petra C, Brown, Gordon D, Marshall, Aileen, Kutter, Claudia, Watt, Stephen, Martinez-Jimenez, Celia P, Mackay, Sarah, Talianidis, Iannis, Flicek, Paul, Odom, Duncan T

“…Transcription factors (TFs) direct gene expression by binding to DNA regulatory regions. To explore the evolution of gene regulation, we used chromatin…”
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A CTCF-independent role for cohesin in tissue-specific transcription by Schmidt, Dominic, Schwalie, Petra C, Ross-Innes, Caryn S, Hurtado, Antoni, Brown, Gordon D, Carroll, Jason S, Flicek, Paul, Odom, Duncan T

“…The cohesin protein complex holds sister chromatids in dividing cells together and is essential for chromosome segregation. Recently, cohesin has been…”
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Cohesin regulates tissue-specific expression by stabilizing highly occupied cis-regulatory modules by Faure, Andre J, Schmidt, Dominic, Watt, Stephen, Schwalie, Petra C, Wilson, Michael D, Xu, Huiling, Ramsay, Robert G, Odom, Duncan T, Flicek, Paul

“…The cohesin protein complex contributes to transcriptional regulation in a CTCF-independent manner by colocalizing with master regulators at tissue-specific…”
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Systems-Genetics-Based Inference of a Core Regulatory Network Underlying White Fat Browning by Li, Yongguo, Schwalie, Petra C., Bast-Habersbrunner, Andrea, Mocek, Sabine, Russeil, Julie, Fromme, Tobias, Deplancke, Bart, Klingenspor, Martin

“…Recruitment of brite/beige cells, known as browning of white adipose tissue (WAT), is an efficient way to turn an energy-storing organ into an…”
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Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes by Schwalie, Petra C, Ward, Michelle C, Cain, Carolyn E, Faure, Andre J, Gilad, Yoav, Odom, Duncan T, Flicek, Paul

“…The genomic binding of CTCF is highly conserved across mammals, but the mechanisms that underlie its stability are poorly understood. One transcription factor…”
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ZFP30 promotes adipogenesis through the KAP1-mediated activation of a retrotransposon-derived Pparg2 enhancer by Chen, Wanze, Schwalie, Petra C., Pankevich, Eugenia V., Gubelmann, Carine, Raghav, Sunil K., Dainese, Riccardo, Cassano, Marco, Imbeault, Michael, Jang, Suk Min, Russeil, Julie, Delessa, Tenagne, Duc, Julien, Trono, Didier, Wolfrum, Christian, Deplancke, Bart

“…Krüppel-associated box zinc finger proteins (KZFPs) constitute the largest family of mammalian transcription factors, but most remain completely…”
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Latent Regulatory Potential of Human-Specific Repetitive Elements by Ward, Michelle C., Wilson, Michael D., Barbosa-Morais, Nuno L., Schmidt, Dominic, Stark, Rory, Pan, Qun, Schwalie, Petra C., Menon, Suraj, Lukk, Margus, Watt, Stephen, Thybert, David, Kutter, Claudia, Kirschner, Kristina, Flicek, Paul, Blencowe, Benjamin J., Odom, Duncan T.

“…At least half of the human genome is derived from repetitive elements, which are often lineage specific and silenced by a variety of genetic and epigenetic…”
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Identification of the transcription factor ZEB1 as a central component of the adipogenic gene regulatory network by Gubelmann, Carine, Schwalie, Petra C, Raghav, Sunil K, Röder, Eva, Delessa, Tenagne, Kiehlmann, Elke, Waszak, Sebastian M, Corsinotti, Andrea, Udin, Gilles, Holcombe, Wiebke, Rudofsky, Gottfried, Trono, Didier, Wolfrum, Christian, Deplancke, Bart

“…Adipose tissue is a key determinant of whole body metabolism and energy homeostasis. Unraveling the regulatory mechanisms underlying adipogenesis is therefore…”
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Mechanism and effects of pulsatile GABA secretion from cytosolic pools in the human beta cell by Menegaz, Danusa, Hagan, D. Walker, Almaça, Joana, Cianciaruso, Chiara, Rodriguez-Diaz, Rayner, Molina, Judith, Dolan, Robert M., Becker, Matthew W., Schwalie, Petra C., Nano, Rita, Lebreton, Fanny, Kang, Chen, Sah, Rajan, Gaisano, Herbert Y., Berggren, Per-Olof, Baekkeskov, Steinunn, Caicedo, Alejandro, Phelps, Edward A.

“…Pancreatic beta cells synthesize and secrete the neurotransmitter GABA (γ-aminobutyric acid) as a paracrine and autocrine signal to help regulate hormone…”
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GLUT3 is induced during epithelial-mesenchymal transition and promotes tumor cell proliferation in non-small cell lung cancer by Masin, Mark, Vazquez, Jessica, Rossi, Simona, Groeneveld, Svenja, Samson, Natasha, Schwalie, Petra C, Deplancke, Bart, Frawley, Laura E, Gouttenoire, Jérôme, Moradpour, Darius, Oliver, Trudy G, Meylan, Etienne

“…Alterations in glucose metabolism and epithelial-mesenchymal transition (EMT) constitute two important characteristics of carcinoma progression toward invasive…”
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Dissecting the brown adipogenic regulatory network using integrative genomics by Pradhan, Rachana N., Bues, Johannes J., Gardeux, Vincent, Schwalie, Petra C., Alpern, Daniel, Chen, Wanze, Russeil, Julie, Raghav, Sunil K., Deplancke, Bart

“…Brown adipocytes regulate energy expenditure via mitochondrial uncoupling, which makes them attractive therapeutic targets to tackle obesity. However, the…”
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Tumor-agnostic transcriptome-based classifier identifies spatial infiltration patterns of CD8+T cells in the tumor microenvironment and predicts clinical outcome in early-phase and late-phase clinical trials by Roller, Andreas, Davydov, Iakov I, Schwalie, Petra C, Serrano-Serrano, Martha L, Heller, Astrid, Staedler, Nicolas, Ferreira, Cláudia S, Dietmann, Gabriele, Klaman, Irina, Valdeolivas, Alberto, Korski, Konstanty, Cannarile, Michael A

“…BackgroundThe immune status of a patient’s tumor microenvironment (TME) may guide therapeutic interventions with cancer immunotherapy and help identify…”
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CAST-ChIP Maps Cell-Type-Specific Chromatin States in the Drosophila Central Nervous System by Schauer, Tamás, Schwalie, Petra C., Handley, Ava, Margulies, Carla E., Flicek, Paul, Ladurner, Andreas G.

“…Chromatin organization and gene activity are responsive to developmental and environmental cues. Although many genes are transcribed throughout development and…”
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Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics by Valdeolivas, Alberto, Amberg, Bettina, Giroud, Nicolas, Richardson, Marion, Gálvez, Eric J. C., Badillo, Solveig, Julien-Laferrière, Alice, Túrós, Demeter, Voith von Voithenberg, Lena, Wells, Isabelle, Pesti, Benedek, Lo, Amy A., Yángüez, Emilio, Das Thakur, Meghna, Bscheider, Michael, Sultan, Marc, Kumpesa, Nadine, Jacobsen, Björn, Bergauer, Tobias, Saez-Rodriguez, Julio, Rottenberg, Sven, Schwalie, Petra C., Hahn, Kerstin

“…The consensus molecular subtypes (CMS) of colorectal cancer (CRC) is the most widely-used gene expression-based classification and has contributed to a better…”
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Combinations of Toll-like receptor 8 agonist TL8-506 activate human tumor-derived dendritic cells by He, Mi, Soni, Bhavesh, Schwalie, Petra C, Hüsser, Tamara, Waltzinger, Caroline, De Silva, Duvini, Prinz, Ylva, Krümpelmann, Laura, Calabro, Samuele, Matos, Ines, Trumpfheller, Christine, Bacac, Marina, Umaña, Pablo, Levesque, Mitchell P, Dummer, Reinhard, van den Broek, Maries, Gasser, Stephan

“…BackgroundDendritic cells (DCs) are professional antigen presenting cells that initiate immune defense to pathogens and tumor cells. Human tumors contain only…”
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A stromal cell population that inhibits adipogenesis in mammalian fat depots by Schwalie, Petra C., Dong, Hua, Zachara, Magda, Russeil, Julie, Alpern, Daniel, Akchiche, Nassila, Caprara, Christian, Sun, Wenfei, Schlaudraff, Kai-Uwe, Soldati, Gianni, Wolfrum, Christian, Deplancke, Bart

“…Adipocyte development and differentiation have an important role in the aetiology of obesity and its co-morbidities 1 , 2 . Although multiple studies have…”
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PD-1-cis IL-2R agonism yields better effectors from stem-like CD8+ T cells by Codarri Deak, Laura, Nicolini, Valeria, Hashimoto, Masao, Karagianni, Maria, Schwalie, Petra C., Lauener, Laura, Varypataki, Eleni Maria, Richard, Marine, Bommer, Esther, Sam, Johannes, Joller, Stefanie, Perro, Mario, Cremasco, Floriana, Kunz, Leo, Yanguez, Emilio, Hüsser, Tamara, Schlenker, Ramona, Mariani, Marisa, Tosevski, Vinko, Herter, Sylvia, Bacac, Marina, Waldhauer, Inja, Colombetti, Sara, Gueripel, Xavier, Wullschleger, Stephan, Tichet, Melanie, Hanahan, Douglas, Kissick, Haydn T., Leclair, Stephane, Freimoser-Grundschober, Anne, Seeber, Stefan, Teichgräber, Volker, Ahmed, Rafi, Klein, Christian, Umaña, Pablo

“…Expansion and differentiation of antigen-experienced PD-1 + TCF-1 + stem-like CD8 + T cells into effector cells is critical for the success of immunotherapies…”
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Reversible De-differentiation of Mature White Adipocytes into Preadipocyte-like Precursors during Lactation by Wang, Qiong A., Song, Anying, Chen, Wanze, Schwalie, Petra C., Zhang, Fang, Vishvanath, Lavanya, Jiang, Lei, Ye, Risheng, Shao, Mengle, Tao, Caroline, Gupta, Rana K., Deplancke, Bart, Scherer, Philipp E.

“…Adipose tissue in the mammary gland undergoes dramatic remodeling during reproduction. Adipocytes are replaced by mammary alveolar structures during pregnancy…”
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