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  1. Li, Ronghui [Author] ; Zimmer, Geraldine [Degree supervisor]; Costa Filho, Ivan Gesteira [Degree supervisor]

    Detection of cell markers from single cell RNA-seq with sc2marker

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

    Published in: Aachen ; RWTH Aachen University, 2022

  2. Zhang, Xiaoting [Author] ; Kramann, Rafael [Degree supervisor]; Costa Filho, Ivan Gesteira [Degree supervisor]

    Incorporating single molecule in situ hybridization approach to single cell sequencing workflows

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  3. Hadizadeh Esfahani, Ali [Author] ; Schuppert, Andreas [Degree supervisor]; Costa Filho, Ivan Gesteira [Degree supervisor]

    A generic knowledge-driven dimensionality reduction tool for stress response modeling in living systems

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2021

    Published in: Aachen ; RWTH Aachen University, 2021

  4. Hadizadeh Esfahani, Ali [Author] ; Schuppert, Andreas [Degree supervisor]; Costa Filho, Ivan Gesteira [Degree supervisor]

    A generic knowledge-driven dimensionality reduction tool for stress response modeling in living systems

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2021

    Published in: Aachen : RWTH Aachen University, 2021

  5. Li, Zhijian [Author] ; Berlage, Thomas [Degree supervisor]; Costa Filho, Ivan Gesteira [Degree supervisor]; Schaub, Michael Thomas [Degree supervisor]

    Computational method for single cell ATAC-seq imputation and dimensionality reduction

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  6. Li, Zhijian [Author] ; Berlage, Thomas [Degree supervisor]; Costa Filho, Ivan Gesteira [Degree supervisor]; Schaub, Michael Thomas [Degree supervisor]

    Computational method for single cell ATAC-seq imputation and dimensionality reduction

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  7. Kuo, Chao-Chung [Author] ; Costa Filho, Ivan Gesteira [Degree supervisor]; Zenke, Martin [Degree supervisor]; Usadel, Björn [Degree supervisor]

    Computational detection of triple helix binding domains in long non-coding RNAs

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2019

  8. Maie, Tiago [Author]; Schmidt, Marco [Author]; Erz, Myriam [Author]; Wagner, Wolfgang [Author]; Costa Filho, Ivan Gesteira [Author]

    CimpleG: Finding simple CpG methylation signatures

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  9. Li, Zhijian [Author]; Nagai, James [Author]; Kuppe, Christoph [Author]; Kramann, Rafael [Author]; Costa Filho, Ivan Gesteira [Author]

    scMEGA : Single-cell Multiomic Enhancer-based Gene Regulatory Network Inference

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  10. Li, Zhijian [Author]; Kuppe, Christoph [Author]; Cheng, Mingbo [Author]; Menzel, Sylvia [Author]; Zenke, Martin [Author]; Kramann, Rafael [Author]; Costa Filho, Ivan Gesteira [Author]

    scOpen : chromatin-accessibility estimation of single-cell ATAC data

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2019

  11. Joodaki, Mehdi [Author]; Shaigan, Mina [Author]; Parra, Victor [Author]; Bülow, Roman D. [Author]; Kuppe, Christoph [Author]; Hölscher, David L. [Author]; Cheng, Mingbo [Author]; Nagai, James S. [Author]; Bouteldja, Nassim [Author]; Tesar, Vladimir [Author]; Barratt, Jonathan [Author]; Roberts, Ian S. D. [Author]; Coppo, Rosanna [Author]; Kramann, Rafael [Author]; Boor, Peter [Author]; Costa Filho, Ivan Gesteira [Author]

    Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT)

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  12. Xu, Huaming [Author]; Li, Zhijian [Author]; Kuo, Chao-Chung [Author]; Götz, Katrin [Author]; Look, Thomas [Author]; Szymanski de Toledo, Marcelo Augusto [Author]; Seré, Kristin [Author]; Costa Filho, Ivan Gesteira [Author]; Zenke, Martin [Author]

    A lncRNA identifies IRF8 enhancer element in negative feedback control of dendritic cell differentiation

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  13. Barsoum, Mirna [Author]; Stenzel, Alexander T. [Author]; Bochynska, Agnieszka [Author]; Kuo, Chao-Chung [Author]; Sayadi-Boroujeni, Roksaneh [Author]; Bussmann, Philip [Author]; Lüscher-Firzlaff, Juliane [Author]; Costa Filho, Ivan Gesteira [Author]; Lüscher, Bernhard [Author]

    Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes promotes chromatin compaction at promoters

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  14. Torow, Natalia [Author]; Li, Ronghui [Author]; Hitch, Thomas [Author]; Mingels, Clemens [Author]; Al Bounny, Shahed [Author]; van Best, Niels [Author]; Stange, Eva-Lena [Author]; Benabid, Adam [Author]; Ruettger, Lennart [Author]; Gadermayr, Michael [Author]; Runge, S. [Author]; Treichel, N. [Author]; Merhof, D. [Author]; Rosshart, S. [Author]; Jehmlich, N. [Author]; von Bergen, M. [Author]; Heymann, F. [Author]; Clavel, T. [Author]; Tacke, F. [Author]; Lelouard, H. [Author]; Costa Filho, Ivan Gesteira [Author]; Hornef, M. W. [Author]

    Neonatal Peyer's patch cDC activation as a pacemaker of postnatal immune maturation

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  15. Boor, Peter [Author]; Hölscher, David L. [Author]; Bouteldja, Nassim [Author]; Joodaki, Mehdi [Author]; Russo, Maria [Author]; Lan, Yu-Chia [Author]; Sadr, Alireza [Author]; Cheng, Mingbo [Author]; Tesar, Vladimir [Author]; von Stillfried, Saskia [Author]; Klinkhammer, Barbara Mara [Author]; Barratt, Jonathan [Author]; Flöge, Jürgen [Author]; Roberts, Ian [Author]; Coppo, Rosanna [Author]; Costa Filho, Ivan Gesteira [Author]; Bülow, Roman D. [Author]

    Next-Generation Morphometry for pathomics-data mining in histopathology

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    Aachen: Universitätsbibliothek der RWTH Aachen, 2022

  16. Yildiz, Can Bora [Author]; Kundu, Tathagata [Author]; Zimmermann, Olav [Author]; Rossetti, Giulia [Author]; Costa, Ivan G. [Author]; Zimmer-Bensch, Geraldine [Author]; Gehrmann, Julia [Author]; Koesling, Jannis [Author]; Ravaei, Amin [Author]; Wolff, Philip [Author]; Kraft, Florian [Author]; Maié, Tiago [Author]; Jakovcevski, Mira [Author]; Pensold, Daniel [Author]

    EphrinA5 regulates cell motility by modulating Snhg15/DNA triplex-dependent targeting of DNMT1 to the Ncam1 promoter

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    BioMed Central, 2023

    Published in: Epigenetics & chromatin 16(1), 42 (2023). doi:10.1186/s13072-023-00516-4