Characterization of the nuclear and cytosolic transcriptomes in human brain tissue reveals new insights into the subcellular distribution of RNA transcripts von Zaghlool, Ammar, Niazi, Adnan, Björklund, Åsa K., Westholm, Jakub Orzechowski, Ameur, Adam, Feuk, Lars

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Clonal relations in the mouse brain revealed by single-cell and spatial transcriptomics von Ratz, Michael, von Berlin, Leonie, Larsson, Ludvig, Martin, Marcel, Westholm, Jakub Orzechowski, La Manno, Gioele, Lundeberg, Joakim, Frisén, Jonas

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Early fate bias in neuroepithelial progenitors of hippocampal neurogenesis von Berlin, Leonie, Westholm, Jakub Orzechowski, Ratz, Michael, Frisén, Jonas

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Expression profiling and in situ screening of circular RNAs in human tissues von Zaghlool, Ammar, Ameur, Adam, Wu, Chenglin, Westholm, Jakub Orzechowski, Niazi, Adnan, Manivannan, Manimozhi, Bramlett, Kelli, Nilsson, Mats, Feuk, Lars

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Heterogeneity and interplay of the extracellular vesicle small RNA transcriptome and proteome von Sork, Helena, Corso, Giulia, Krjutskov, Kaarel, Johansson, Henrik J., Nordin, Joel Z., Wiklander, Oscar P. B., Lee, Yi Xin Fiona, Westholm, Jakub Orzechowski, Lehtiö, Janne, Wood, Matthew J. A., Mäger, Imre, EL Andaloussi, Samir

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Multi-omics analysis of aggregative multicellularity von Edelbroek, Bart, Westholm, Jakub Orzechowski, Bergquist, Jonas, Söderbom, Fredrik

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Acute sleep loss results in tissue-specific alterations in genome-wide DNA methylation state and metabolic fuel utilization in humans von Cedernaes, Jonathan, Schönke, Milena, Westholm, Jakub Orzechowski, Mi, Jia, Chibalin, Alexander, Voisin, Sarah, Osler, Megan, Vogel, Heike, Hörnaeus, Katarina, Dickson, Suzanne L, Lind, Sara Bergström, Bergquist, Jonas, Schiöth, Helgi B, Zierath, Juleen R, Benedict, Christian

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Transcriptional profiling reveals a critical role for tyrosine phosphatase VE-PTP in regulation of VEGFR2 activity and endothelial cell morphogenesis von Mellberg, Sofie, Dimberg, Anna, Bahram, Fuad, Hayashi, Makoto, Rennel, Emma, Ameur, Adam, Westholm, Jakub Orzechowski, Larsson, Erik, Lindahl, Per, Cross, Michael J, Claesson-Welsh, Lena

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Combinatorial control of gene expression by the three yeast repressors Mig1, Mig2 and Mig3 von Westholm, Jakub Orzechowski, Nordberg, Niklas, Murén, Eva, Ameur, Adam, Komorowski, Jan, Ronne, Hans

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Gis1 and Rph1 regulate glycerol and acetate metabolism in glucose depleted yeast cells von Orzechowski Westholm, Jakub, Tronnersjö, Susanna, Nordberg, Niklas, Olsson, Ida, Komorowski, Jan, Ronne, Hans

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Massive and parallel expression profiling using microarrayed single-cell sequencing von Vickovic, Sanja, Ståhl, Patrik L., Salmén, Fredrik, Giatrellis, Sarantis, Westholm, Jakub Orzechowski, Mollbrink, Annelie, Navarro, José Fernández, Custodio, Joaquin, Bienko, Magda, Sutton, Lesley-Ann, Rosenquist, Richard, Frisén, Jonas, Lundeberg, Joakim

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Profiling of Extracellular Small RNAs Highlights a Strong Bias towards Non-Vesicular Secretion von Sork, Helena, Conceicao, Mariana, Corso, Giulia, Nordin, Joel, Lee, Yi Xin Fiona, Krjutskov, Kaarel, Orzechowski Westholm, Jakub, Vader, Pieter, Pauwels, Marie, Vandenbroucke, Roosmarijn E, Wood, Matthew Ja, El Andaloussi, Samir, Mäger, Imre

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Endocan is a VEGF-A and PI3K regulated gene with increased expression in human renal cancer von Rennel, Emma, Mellberg, Sofie, Dimberg, Anna, Petersson, Ludvig, Botling, Johan, Ameur, Adam, Westholm, Jakub Orzechowski, Komorowski, Jan, Lassalle, Philippe, Cross, Michael J., Gerwins, Pär

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The histone demethylase activity of Rph1 is not essential for its role in the transcriptional response to nutrient signaling von Nordberg, Niklas, Olsson, Ida, Carlsson, Mattias, Hu, Guo-Zhen, Orzechowski Westholm, Jakub, Ronne, Hans

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Neurophysiological defects and neuronal gene deregulation in Drosophila mir-124 mutants von Sun, Kailiang, Westholm, Jakub Orzechowski, Tsurudome, Kazuya, Hagen, Joshua W, Lu, Yubing, Kohwi, Minoree, Betel, Doron, Gao, Fen-Biao, Haghighi, A Pejmun, Doe, Chris Q, Lai, Eric C

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Acute sleep loss alters circulating fibroblast growth factor 21 levels in humans: A randomised crossover trial von Mateus Brandão, Luiz Eduardo, Espes, Daniel, Westholm, Jakub Orzechowski, Martikainen, Teemu, Westerlund, Nestori, Lampola, Lauri, Popa, Alexandru, Vogel, Heike, Schürmann, Annette, Dickson, Suzanne L., Benedict, Christian, Cedernaes, Jonathan

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Genome-scale study of the importance of binding site context for transcription factor binding and gene regulation von Westholm, Jakub Orzechowski, Xu, Feifei, Ronne, Hans, Komorowski, Jan

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Histone modifications influence mediator interactions with chromatin von Zhu, Xuefeng, Zhang, Yongqiang, Bjornsdottir, Gudrun, Liu, Zhongle, Quan, Amy, Costanzo, Michael, Dávila López, Marcela, Westholm, Jakub Orzechowski, Ronne, Hans, Boone, Charles, Gustafsson, Claes M., Myers, Lawrence C.

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Nitrogen depletion in the fission yeast Schizosaccharomyces pombe causes nucleosome loss in both promoters and coding regions of activated genes von Kristell, Carolina, Orzechowski Westholm, Jakub, Olsson, Ida, Ronne, Hans, Komorowski, Jan, Bjerling, Pernilla

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Visualization and analysis of gene expression in tissue sections by spatial transcriptomics von Ståhl, Patrik L., Salmén, Fredrik, Vickovic, Sanja, Lundmark, Anna, Navarro, José Fernández, Magnusson, Jens, Giacomello, Stefania, Asp, Michaela, Westholm, Jakub O., Huss, Mikael, Mollbrink, Annelie, Linnarsson, Sten, Codeluppi, Simone, Borg, Åke, Pontén, Fredrik, Costea, Paul Igor, Sahlén, Pelin, Mulder, Jan, Bergmann, Olaf, Lundeberg, Joakim, Frisén, Jonas

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