A Human Interactome in Three Quantitative Dimensions Organized by Stoichiometries and Abundances von Hein, Marco Y., Hubner, Nina C., Poser, Ina, Cox, Jürgen, Nagaraj, Nagarjuna, Toyoda, Yusuke, Gak, Igor A., Weisswange, Ina, Mansfeld, Jörg, Buchholz, Frank, Hyman, Anthony A., Mann, Matthias

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Whole-Genome Bisulfite Sequencing of Two Distinct Interconvertible DNA Methylomes of Mouse Embryonic Stem Cells von Habibi, Ehsan, Brinkman, Arie B., Arand, Julia, Kroeze, Leonie I., Kerstens, Hindrik H.D., Matarese, Filomena, Lepikhov, Konstantin, Gut, Marta, Brun-Heath, Isabelle, Hubner, Nina C., Benedetti, Rosaria, Altucci, Lucia, Jansen, Joop H., Walter, Jörn, Gut, Ivo G., Marks, Hendrik, Stunnenberg, Hendrik G.

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Extracting gene function from protein–protein interactions using Quantitative BAC InteraCtomics (QUBIC) von Hubner, Nina C., Mann, Matthias

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Activin/nodal signaling and NANOG orchestrate human embryonic stem cell fate decisions by controlling the H3K4me3 chromatin mark von Bertero, Alessandro, Madrigal, Pedro, Galli, Antonella, Hubner, Nina C, Moreno, Inmaculada, Burks, Deborah, Brown, Stephanie, Pedersen, Roger A, Gaffney, Daniel, Mendjan, Sasha, Pauklin, Siim, Vallier, Ludovic

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Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast von de Godoy, Lyris M.F, Olsen, Jesper V, Cox, Jurgen, Nielsen, Michael L, Hubner, Nina C, Frohlich, Florian, Walther, Tobias C, Mann, Matthias

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High confidence determination of specific protein–protein interactions using quantitative mass spectrometry von Vermeulen, Michiel, Hubner, Nina C, Mann, Matthias

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Epigenetic Repression of Androgen Receptor Transcription in Mutation-Negative Androgen Insensitivity Syndrome (AIS Type II) von Hornig, Nadine C, Rodens, Pascal, Dörr, Helmuth, Hubner, Nina C, Kulle, Alexandra E, Schweikert, Hans-Udo, Welzel, Maik, Bens, Susanne, Hiort, Olaf, Werner, Ralf, Gonzalves, Susanne, Eckstein, Anne Katrin, Cools, Martine, Verrijn-Stuart, Annemarie, Stunnenberg, Hendrik G, Siebert, Reiner, Ammerpohl, Ole, Holterhus, Paul-Martin

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The non-coding variant rs1800734 enhances DCLK3 expression through long-range interaction and promotes colorectal cancer progression von Liu, Ning Qing, ter Huurne, Menno, Nguyen, Luan N., Peng, Tianran, Wang, Shuang-Yin, Studd, James B., Joshi, Onkar, Ongen, Halit, Bramsen, Jesper B, Yan, Jian, Andersen, Claus L., Taipale, Jussi, Dermitzakis, Emmanouil T., Houlston, Richard S., Hubner, Nina C., Stunnenberg, Hendrik G.

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Factors predicting non-ventilated hospital-acquired pneumonia: systematic review and meta-analysis von Lukasewicz Ferreira, S.A., Hubner Dalmora, C., Anziliero, F., de Souza Kuchenbecker, R., Klarmann Ziegelmann, P.

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Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) and Proteome Quantitation of Mouse Embryonic Stem Cells to a Depth of 5,111 Proteins von Graumann, Johannes, Hubner, Nina C., Kim, Jeong Beom, Ko, Kinarm, Moser, Markus, Kumar, Chanchal, Cox, Jürgen, Schöler, Hans, Mann, Matthias

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RAD21 cooperates with pluripotency transcription factors in the maintenance of embryonic stem cell identity von Nitzsche, Anja, Paszkowski-Rogacz, Maciej, Matarese, Filomena, Janssen-Megens, Eva M, Hubner, Nina C, Schulz, Herbert, de Vries, Ingrid, Ding, Li, Huebner, Norbert, Mann, Matthias, Stunnenberg, Hendrik G, Buchholz, Frank

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A covalent and cleavable antibody-DNA conjugation strategy for sensitive protein detection via immuno-PCR von van Buggenum, Jessie A. G. L., Gerlach, Jan P., Eising, Selma, Schoonen, Lise, van Eijl, Roderick A. P. M., Tanis, Sabine E. J., Hogeweg, Mark, Hubner, Nina C., van Hest, Jan C., Bonger, Kimberly M., Mulder, Klaas W.

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A Quantitative Proteomics Tool To Identify DNA–Protein Interactions in Primary Cells or Blood von Hubner, Nina C, Nguyen, Luan N, Hornig, Nadine C, Stunnenberg, Hendrik G

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genome-wide screen for genes affecting eisosomes reveals Nce102 function in sphingolipid signaling von Fröhlich, Florian, Moreira, Karen, Aguilar, Pablo S, Hubner, Nina C, Mann, Matthias, Walter, Peter, Walther, Tobias C

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The CRAPome: a contaminant repository for affinity purification–mass spectrometry data von Mellacheruvu, Dattatreya, Wright, Zachary, Couzens, Amber L, Lambert, Jean-Philippe, St-Denis, Nicole A, Li, Tuo, Miteva, Yana V, Hauri, Simon, Sardiu, Mihaela E, Low, Teck Yew, Halim, Vincentius A, Bagshaw, Richard D, Hubner, Nina C, al-Hakim, Abdallah, Bouchard, Annie, Faubert, Denis, Fermin, Damian, Dunham, Wade H, Goudreault, Marilyn, Lin, Zhen-Yuan, Badillo, Beatriz Gonzalez, Pawson, Tony, Durocher, Daniel, Coulombe, Benoit, Aebersold, Ruedi, Superti-Furga, Giulio, Colinge, Jacques, Heck, Albert J R, Choi, Hyungwon, Gstaiger, Matthias, Mohammed, Shabaz, Cristea, Ileana M, Bennett, Keiryn L, Washburn, Mike P, Raught, Brian, Ewing, Rob M, Gingras, Anne-Claude, Nesvizhskii, Alexey I

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The Vertebrate Mitotic Checkpoint Protein BUBR1 Is an Unusual Pseudokinase von Suijkerbuijk, Saskia J.E., van Dam, Teunis J.P., Karagöz, G. Elif, von Castelmur, Eleonore, Hubner, Nina C., Duarte, Afonso M.S., Vleugel, Mathijs, Perrakis, Anastassis, Rüdiger, Stefan G.D., Snel, Berend, Kops, Geert J.P.L.

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A Polymorphic Enhancer near GREM1 Influences Bowel Cancer Risk through Differential CDX2 and TCF7L2 Binding von Lewis, Annabelle, Freeman-Mills, Luke, de la Calle-Mustienes, Elisa, Giráldez-Pérez, Rosa María, Davis, Hayley, Jaeger, Emma, Becker, Martin, Hubner, Nina C., Nguyen, Luan N., Zeron-Medina, Jorge, Bond, Gareth, Stunnenberg, Hendrik G., Carvajal, Jaime J., Gomez-Skarmeta, Jose Luis, Leedham, Simon, Tomlinson, Ian

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The Hematopoietic Transcription Factors RUNX1 and ERG Prevent AML1-ETO Oncogene Overexpression and Onset of the Apoptosis Program in t(8;21) AMLs von Mandoli, Amit, Singh, Abhishek A., Prange, Koen H.M., Tijchon, Esther, Oerlemans, Marjolein, Dirks, Rene, Ter Huurne, Menno, Wierenga, Albertus T.J., Janssen-Megens, Eva M., Berentsen, Kim, Sharifi, Nilofar, Kim, Bowon, Matarese, Filomena, Nguyen, Luan N., Hubner, Nina C., Rao, Nagesha A., van den Akker, Emile, Altucci, Lucia, Vellenga, Edo, Stunnenberg, Hendrik G., Martens, Joost H.A.

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The SMAD2/3 interactome reveals that TGFβ controls m 6 A mRNA methylation in pluripotency von Bertero, Alessandro, Brown, Stephanie, Madrigal, Pedro, Osnato, Anna, Ortmann, Daniel, Yiangou, Loukia, Kadiwala, Juned, Hubner, Nina C, de Los Mozos, Igor Ruiz, Sadée, Christoph, Lenaerts, An-Sofie, Nakanoh, Shota, Grandy, Rodrigo, Farnell, Edward, Ule, Jernej, Stunnenberg, Hendrik G, Mendjan, Sasha, Vallier, Ludovic

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Peptide separation with immobilized pI strips is an attractive alternative to in-gel protein digestion for proteome analysis von Hubner, Nina C, Ren, Shubin, Mann, Matthias

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