Ivan G Costa (Ivan Costa)

ResearcherID ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2018-2023
Publications (10 Years): 44

Top Venues

Nature communications

Scientific reports

Leukemia

Molecular systems biology

RWTH Aachen Medical Faculty

This page only lists publications with an associated author ORCID identifier.

Affiliation History

RWTH Aachen Medical Faculty Nov 01 2017

Germany

Prof. :: Institute for Computational Genomics

RWTH Aachen University Aug 01 2012 - Oct 31 2017

Germany

Group Leader :: IZKF Research Group Bioinformatics

Publications

David L Hölscher, Nassim Bouteldja, Mehdi Joodaki, Maria L Russo, Yu-Chia Lan, Alireza Vafaei Sadr, Mingbo Cheng, Vladimir Tesar, Saskia V Stillfried, Barbara Mara Klinkhammer, Jonathan Barratt, Jürgen Floege, Ian S D Roberts, Rosanna Coppo, Ivan G Costa, Roman David Bülow, Peter Boor
Next-Generation Morphometry for pathomics-data mining in histopathology. Nature communications 14 (1) (2023)
Mehdi Joodaki, Mina Shaigan, Victor Parra, Roman David Bülow, Christoph Kuppe, David L Hölscher, Mingbo Cheng, James S Nagai, Michaël Goedertier, Nassim Bouteldja, Vladimir Tesar, Jonathan Barratt, Ian Sd Roberts, Rosanna Coppo, Rafael Kramann, Peter Boor, Ivan G Costa
Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT). Molecular systems biology 20 (2) (2023)
Zhijian Li, James S Nagai, Christoph Kuppe, Rafael Kramann, Ivan G Costa
scMEGA: single-cell multi-omic enhancer-based gene regulatory network inference. Bioinformatics advances 3 (1) (2023)
Ivan G Costa
Dissecting gene regulation with multimodal sequencing. Nature methods (2023)
Mehdi Joodaki, Mina Shaigan, Victor Parra, Roman David Bülow, Christoph Kuppe, David L Hölscher, Mingbo Cheng, James S Nagai, Michaël Goedertier, Nassim Bouteldja, Vladimir Tesar, Jonathan Barratt, Ian Sd Roberts, Rosanna Coppo, Rafael Kramann, Peter Boor, Ivan G Costa
Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT). Molecular systems biology (2023)
Mehdi Joodaki, Mina Shaigan, Victor Parra, Roman David Bülow, Christoph Kuppe, David L Hölscher, Mingbo Cheng, James S Nagai, Michaël Goedertier, Nassim Bouteldja, Vladimir Tesar, Jonathan Barratt, Ian Sd Roberts, Rosanna Coppo, Rafael Kramann, Peter Boor, Ivan G Costa
Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT). Molecular systems biology 20 (2) (2023)
Mehdi Joodaki, Mina Shaigan, Victor Parra, Roman David Bülow, Christoph Kuppe, David L Hölscher, Mingbo Cheng, James S Nagai, Michaël Goedertier, Nassim Bouteldja, Vladimir Tesar, Jonathan Barratt, Ian Sd Roberts, Rosanna Coppo, Rafael Kramann, Peter Boor, Ivan G Costa
Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT). Molecular systems biology 20 (2) (2023)
Mehdi Joodaki, Mina Shaigan, Victor Parra, Roman David Bülow, Christoph Kuppe, David L Hölscher, Mingbo Cheng, James S Nagai, Michaël Goedertier, Nassim Bouteldja, Vladimir Tesar, Jonathan Barratt, Ian Sd Roberts, Rosanna Coppo, Rafael Kramann, Peter Boor, Ivan G Costa
Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT). Molecular systems biology (2023)
David L Hölscher, Nassim Bouteldja, Mehdi Joodaki, Maria L Russo, Yu-Chia Lan, Alireza Vafaei Sadr, Mingbo Cheng, Vladimir Tesar, Saskia V Stillfried, Barbara Mara Klinkhammer, Jonathan Barratt, Jürgen Floege, Ian S D Roberts, Rosanna Coppo, Ivan G Costa, Roman David Bülow, Peter Boor
Next-Generation Morphometry for pathomics-data mining in histopathology. Nature communications 14 (1) (2023)
Tiago Maié, Marco Schmidt, Myriam Erz, Wolfgang Wagner, Ivan G Costa
CimpleG: finding simple CpG methylation signatures. Genome biology 24 (1) (2023)
David L Hölscher, Nassim Bouteldja, Mehdi Joodaki, Maria L Russo, Yu-Chia Lan, Alireza Vafaei Sadr, Mingbo Cheng, Vladimir Tesar, Saskia V Stillfried, Barbara Mara Klinkhammer, Jonathan Barratt, Jürgen Floege, Ian S D Roberts, Rosanna Coppo, Ivan G Costa, Roman David Bülow, Peter Boor
Next-Generation Morphometry for pathomics-data mining in histopathology. Nature communications 14 (1) (2023)
Wouter H G Hubens, Tiago Maié, Matthis Schnitker, Ledio Bocova, Deepika Puri, Martina Wessiepe, Jan Kramer, Lothar Rink, Steffen Koschmieder, Ivan G Costa, Wolfgang Wagner
Targeted DNA Methylation Analysis Facilitates Leukocyte Counts in Dried Blood Samples. Clinical chemistry (2023)
Huaming Xu, Zhijian Li, Chao-Chung Kuo, Katrin Goetz, Thomas Look, Marcelo A S de Toldeo, Kristin Sere, Ivan G Costa, Martin Zenke
A lncRNA identifies Irf8 enhancer element in negative feedback control of dendritic cell differentiation. eLife 12 (2023)
David L Hölscher, Nassim Bouteldja, Mehdi Joodaki, Maria L Russo, Yu-Chia Lan, Alireza Vafaei Sadr, Mingbo Cheng, Vladimir Tesar, Saskia V Stillfried, Barbara Mara Klinkhammer, Jonathan Barratt, Jürgen Floege, Ian S D Roberts, Rosanna Coppo, Ivan G Costa, Roman David Bülow, Peter Boor
Next-Generation Morphometry for pathomics-data mining in histopathology. Nature communications 14 (1) (2023)
Zhijian Li, James S Nagai, Christoph Kuppe, Rafael Kramann, Ivan G Costa
scMEGA: single-cell multi-omic enhancer-based gene regulatory network inference. Bioinformatics advances 3 (1) (2023)
Nadine Kaesler, Mingbo Cheng, James S Nagai, James O'Sullivan, Fabian Peisker, Eric M J Bindels, Anne Babler, Julia Moellmann, Patrick Droste, Giulia Franciosa, Aurélien J F Dugourd, Julio Saez-Rodriguez, Sabine Neuss, Michael Lehrke, Peter Boor, Claudia Goettsch, Jesper Velgaard Olsen, Thimoteus Speer, Tzong-Shi Lu, Kenneth Lim, Jürgen Floege, Laura Denby, Ivan G Costa, Rafael Kramann
Mapping cardiac remodeling in chronic kidney disease. Science advances 9 (47) (2023)
Melanie Langhammer, Julia Schöpf, Timo Jaquet, Katharina Horn, Moritz Angel, Corinna Spohr, Daniel Christen, Franziska Maria Uhl, Tiago Maié, Henrike Jacobi, Thorsten B Feyerabend, Julia Huber, Marcus Panning, Cassian Sitaru, Ivan G Costa, Robert Zeiser, Konrad Aumann, Heiko Becker, Till Braunschweig, Steffen Koschmieder, Khalid Shoumariyeh, Michael Huber, Mirle Schemionek-Reinders, Tilman Brummer, Sebastian Halbach
Mast cell deficiency prevents BCR::ABL1 induced splenomegaly and cytokine elevation in a CML mouse model. Leukemia (2023)
Yaoxian Xu, Christoph Kuppe, Javier Perales-Patón, Sikander Hayat, Jennifer Kranz, Ali T Abdallah, James Nagai, Zhijian Li, Fabian Peisker, Turgay Saritas, Maurice Halder, Sylvia Menzel, Konrad Hoeft, Annegien Kenter, Hyojin Kim, Claudia R C van Roeyen, Michael Lehrke, Julia Moellmann, Thimoteus Speer, Eva Miriam Buhl, Remco Hoogenboezem, Peter Boor, Jitske Jansen, Cordula Knopp, Ingo Kurth, Bart Smeets, Eric M J Bindels, Marlies E J Reinders, Carla Baan, Joost H Gribnau, Ewout J Hoorn, Joachim Steffens, Tobias B Huber, Ivan G Costa, Jürgen Floege, Rebekka K Schneider, Julio Saez-Rodriguez, Benjamin S Freedman, Rafael Kramann
Adult human kidney organoids originate from CD24 + cells and represent an advanced model for adult polycystic kidney disease. Nature genetics 54 (11) (2022)
Jitske Jansen, Bartholomeus T van den Berge, Martijn van den Broek, Rutger J Maas, Deniz Daviran, Brigith Willemsen, Rona Roverts, Marit van der Kruit, Christoph Kuppe, Katharina C Reimer, Gianluca Di Giovanni, Fieke Mooren, Quincy Nlandu, Helmer Mudde, Roy Wetzels, Dirk den Braanker, Naomi Parr, James S Nagai, Vedran Drenic, Ivan G Costa, Eric Steenbergen, Tom Nijenhuis, Henry B Dijkman, Nicole Endlich, Nicole C A J van de Kar, Rebekka K Schneider, Jack F M Wetzels, Anat Akiva, Johan van der Vlag, Rafael Kramann, Michiel F Schreuder, Bart Smeets
Human pluripotent stem cell-derived kidney organoids for personalized congenital and idiopathic nephrotic syndrome modeling. Development (Cambridge, England) 149 (9) (2022)
James S Nagai, Nils B Leimkühler, Michael T Schaub, Rebekka K Schneider, Ivan G Costa
CrossTalkeR: analysis and visualization of ligand-receptorne tworks. Bioinformatics (Oxford, England) 37 (22) (2022)
Mingbo Cheng, Zhijian Li, Ivan G Costa
MOJITOO: a fast and universal method for integration of multimodal single-cell data. Bioinformatics (Oxford, England) 38 (Suppl 1) (2022)
Mirna Barsoum, Alexander T Stenzel, Agnieszka Bochyńska, Chao-Chung Kuo, Alexander Tsompanidis, Roksaneh Sayadi Boroujeni, Philip Bussmann, Juliane Lüscher-Firzlaff, Ivan G Costa, Bernhard Lüscher
Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes reduces chromatin accessibility at promoters. Scientific reports 12 (1) (2022)
Agnieszka Bochyńska, Alexander T Stenzel, Roksaneh Sayadi Boroujeni, Chao-Chung Kuo, Mirna Barsoum, Weili Liang, Philip Bussmann, Ivan G Costa, Juliane Lüscher-Firzlaff, Bernhard Lüscher
Induction of senescence upon loss of the Ash2l core subunit of H3K4 methyltransferase complexes. Nucleic acids research 50 (14) (2022)
Fabian Peisker, Maurice Halder, James S Nagai, Susanne Ziegler, Nadine Kaesler, Konrad Hoeft, Ronghui Li, Eric M J Bindels, Christoph Kuppe, Julia Moellmann, Michael Lehrke, Christian Stoppe, Michael T Schaub, Rebekka K Schneider, Ivan G Costa, Rafael Kramann
Mapping the cardiac vascular niche in heart failure. Nature communications 13 (1) (2022)
Mirna Barsoum, Alexander T Stenzel, Agnieszka Bochyńska, Chao-Chung Kuo, Alexander Tsompanidis, Roksaneh Sayadi Boroujeni, Philip Bussmann, Juliane Lüscher-Firzlaff, Ivan G Costa, Bernhard Lüscher
Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes reduces chromatin accessibility at promoters. Scientific reports 12 (1) (2022)
Daniel Dimitrov, Dénes Türei, Martín Garrido-Rodriguez, Paul L Burmedi, James S Nagai, Charlotte Boys, Ricardo Omar Ramirez Flores, Hyojin Kim, Bence Szalai, Ivan G Costa, Alberto Valdeolivas, Aurélien Dugourd, Julio Saez-Rodriguez
Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data. Nature communications 13 (1) (2022)
Mirna Barsoum, Alexander T Stenzel, Agnieszka Bochyńska, Chao-Chung Kuo, Alexander Tsompanidis, Roksaneh Sayadi Boroujeni, Philip Bussmann, Juliane Lüscher-Firzlaff, Ivan G Costa, Bernhard Lüscher
Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes reduces chromatin accessibility at promoters. Scientific reports 12 (1) (2022)
Matthias S Leisegang, Jasleen Kaur Bains, Sandra Seredinski, James A Oo, Nina M Krause, Chao-Chung Kuo, Stefan Günther, Nevcin Sentürk Cetin, Timothy Warwick, Can Cao, Frederike Lam, Judit Izquierdo Ponce, Shaza Haydar, Rebecca Bednarz, Chanil Valasarajan, Dominik Christian Fuhrmann, Jens Preussner, Mario Looso, Soni Savai Pullamsetti, Marcel H Schulz, Hendrik R A Jonker, Christian Richter, Flávia Rezende, Ralf Gilsbach, Beatrice Pflüger-Müller, Ilka Wittig, Ingrid Grummt, Teodora Ribarska, Ivan G Costa, Harald Schwalbe, Ralf P Brandes
HIF1α-AS1 is a DNA:DNA:RNA triplex-forming lncRNA interacting with the HUSH complex. Nature communications 13 (1) (2022)
Mirna Barsoum, Alexander T Stenzel, Agnieszka Bochyńska, Chao-Chung Kuo, Alexander Tsompanidis, Roksaneh Sayadi Boroujeni, Philip Bussmann, Juliane Lüscher-Firzlaff, Ivan G Costa, Bernhard Lüscher
Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes reduces chromatin accessibility at promoters. Scientific reports 12 (1) (2022)
Christoph Kuppe, Ricardo Omar Ramirez Flores, Zhijian Li, Sikander Hayat, Rebecca T Levinson, Xian Liao, Monica T Hannani, Jovan Tanevski, Florian Wünnemann, James S Nagai, Maurice Halder, David Schumacher, Sylvia Menzel, Gideon Schäfer, Konrad Hoeft, Mingbo Cheng, Susanne Ziegler, Xiaoting Zhang, Fabian Peisker, Nadine Kaesler, Turgay Saritas, Yaoxian Xu, Astrid Kassner, Jan Gummert, Michiel Morshuis, Junedh M Amrute, Rogier J A Veltrop, Peter Boor, Karin Klingel, Linda W Van Laake, Aryan Vink, Remco M Hoogenboezem, Eric M J Bindels, Leon J Schurgers, Susanne Sattler, Denis Schapiro, Rebekka K Schneider, Kory J Lavine, Hendrik Milting, Ivan G Costa, Julio Saez-Rodriguez, Rafael Kramann
Spatial multi-omic map of human myocardial infarction. Nature 608 (7924) (2022)
Ursula S A Stalmann, Fabio Ticconi, Inge A M Snoeren, Ronghui Li, Hélène F E Gleitz, Glenn S Cowley, Marie E McConkey, Aaron Benson Wong, Stephani Schmitz, Stijn N R Fuchs, Shubhankar Sood, Nils Bastian Leimkühler, Sergio Martinez-Høyer, Bella Banjanin, David E Root, Tim Henrik Brümmendorf, Juliette E Pearce, Andreas Schuppert, Eric M J Bindels, Marieke A Essers, Dirk Heckl, Thomas Stiehl, Ivan G Costa, Benjamin L Ebert, Rebekka K Schneider
Genetic barcoding systematically compares genes in del(5q) MDS and reveals a central role for CSNK1A1 in clonal expansion. Blood advances 6 (6) (2022)
Mirna Barsoum, Alexander T Stenzel, Agnieszka Bochyńska, Chao-Chung Kuo, Alexander Tsompanidis, Roksaneh Sayadi Boroujeni, Philip Bussmann, Juliane Lüscher-Firzlaff, Ivan G Costa, Bernhard Lüscher
Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes reduces chromatin accessibility at promoters. Scientific reports 12 (1) (2022)
Sandra Heller, Zhijian Li, Qiong Lin, Ryan Geusz, Markus Breunig, Meike Hohwieler, Xi Zhang, Gopika G Nair, Thomas Seufferlein, Matthias Hebrok, Maike Sander, Cécile Julier, Alexander Kleger, Ivan G Costa
Transcriptional changes and the role of ONECUT1 in hPSC pancreatic differentiation. Communications biology 4 (1) (2021)
Anne Philippi, Sandra Heller, Ivan G Costa, Valérie Senée, Markus Breunig, Zhijian Li, Sungjin Kwon, Ronan Russell, Anett Illing, Qiong Lin, Meike Hohwieler, Anne Degavre, Pierre A Zalloua, Stefan Liebau, Michael K Schuster, Johannes Krumm, Xi Zhang, Ryan Geusz, Jacqueline R Benthuysen, Allen Wang, Joshua Chiou, Kyle J Gaulton, Heike Neubauer, Eric Simon, Thomas Klein, Martin Wagner, Gopika Nair, Céline Besse, Claire Dandine-Roulland, Robert Olaso, Jean-François Deleuze, Bernhard Kuster, Matthias Hebrok, Thomas Seufferlein, Bjoern Gaertner, Bernhard Otto Boehm, Franz Oswald, Marc Nicolino, Cécile Julier, Alexander Kleger
Mutations and variants of ONECUT1 in diabetes. Nature medicine 27 (11) (2021)
Janis A Müller, Ruediger Gross, Carina Conzelmann, Jana Krüger, Uta Merle, Johannes Steinhart, Tatjana Weil, Lennart Koepke, Caterina Prelli Bozzo, Clarissa Read, Giorgio Fois, Tim Eiseler, Julia Gehrmann, Joanne van Vuuren, Isabel Madeleine Klein, Manfred Frick, Ivan G Costa, Markus Breunig, Beate Grüner, Lynn Peters, Michael K Schuster, Stefan Liebau, Thomas Seufferlein, Steffen Stenger, Albrecht Stenzinger, Patrick E MacDonald, Frank Kirchhoff, Konstantin Maria Johannes Sparrer, Paul Walther, Heiko Lickert, Thomas F E Barth, Martin Wagner, Jan Münch, Sandra Heller, Alexander Kleger
SARS-CoV-2 infects and replicates in cells of the human endocrine and exocrine pancreas. Nature metabolism 3 (2) (2021)
Zhijian Li, Christoph Kuppe, Susanne Ziegler, Mingbo Cheng, Nazanin Kabgani, Sylvia Menzel, Martin Zenke, Rafael Kramann, Ivan G Costa
Chromatin-accessibility estimation from single-cell ATAC-seq data with scOpen. Nature communications 12 (1) (2021)
D Julia Trembinski, Diewertje I Bink, Kosta Theodorou, Janina Sommer, Ariane Fischer, Anke S van Bergen, Chao-Chung Kuo, Ivan G Costa, Christoph Schürmann, Matthias S Leisegang, Ralf P Brandes, Tijna Alekseeva, Boris Brill, Astrid Wietelmann, Christopher N Johnson, Alexander Spring-Connell, Manuel Kaulich, Stanislas Werfel, Stefan Engelhardt, Marc N Hirt, Kaja Yorgan, Thomas Eschenhagen, Luisa Kirchhof, Patrick Hofmann, Nicolas Jaé, Ilka Wittig, Nazha Hamdani, Corinne Bischof, Jaya Krishnan, Riekelt H Houtkooper, Stefanie Dimmeler, Reinier Abraham Boon
Aging-regulated anti-apoptotic long non-coding RNA Sarrah augments recovery from acute myocardial infarction. Nature communications 11 (1) (2020)
Oliver Parting, Samantha Langer, Maja Kim Kuepper, Caroline Wessling, Shaoguang Li, Till Braunschweig, Nicolas Chatain, Tiago Maié, Ivan G Costa, Martina Crysandt, Michael Huber, Tim Henrik Brümmendorf, Steffen Koschmieder, Mirle Schemionek-Reinders
Therapeutic inhibition of FcγRIIb signaling targets leukemic stem cells in chronic myeloid leukemia. Leukemia 34 (10) (2020)
Julian Baumeister, Nicolas Chatain, Annika Hubrich, Tiago Maié, Ivan G Costa, Bernd Denecke, Lijuan Han, Caroline Küstermann, Stephanie Sontag, Kristin Seré, Klaus Strathmann, Martin Zenke, Andreas Schuppert, Tim H Brümmendorf, Kamil R Kranc, Steffen Koschmieder, Deniz Gezer
Hypoxia-inducible factor 1 (HIF-1) is a new therapeutic target in JAK2V617F-positive myeloproliferative neoplasms. Leukemia 34 (4) (2019)
Zhijian Li, Marcel H Schulz, Thomas Look, Matthias Begemann, Martin Zenke, Ivan G Costa
Identification of transcription factor binding sites using ATAC-seq. Genome biology 20 (1) (2019)
Maja Kim Kuepper, Marlena Bütow, Oliver Herrmann, Janine Ziemons, Nicolas Chatain, Angela Maurer, Martin Kirschner, Tiago Maié, Ivan G Costa, Jörg Eschweiler, Steffen Koschmieder, Tim H Brümmendorf, Gerhard Müller-Newen, Mirle Schemionek
Stem cell persistence in CML is mediated by extrinsically activated JAK1-STAT3 signaling. Leukemia 33 (8) (2019)
Juliane Lüscher-Firzlaff, Nicolas Chatain, Chao-Chung Kuo, Till Braunschweig, Agnieszka Bochyńska, Andrea Ullius, Bernd Denecke, Ivan G Costa, Steffen Koschmieder, Bernhard Lüscher
Hematopoietic stem and progenitor cell proliferation and differentiation requires the trithorax protein Ash2l. Scientific reports 9 (1) (2019)
Tanja Božić, Joana Frobel, Annamarija Raic, Fabio Ticconi, Chao-Chung Kuo, Stefanie Heilmann-Heimbach, Tamme W Goecke, Martin Zenke, Edgar Jost, Ivan G Costa, Wolfgang Wagner
Variants of DNMT3A cause transcript-specific DNA methylation patterns and affect hematopoiesis. Life science alliance 1 (6) (2018)
Julia Czech, Sabrina Cordua, Barbora Weinbergerova, Julian Baumeister, Assja Crepcia, Lijuan Han, Tiago Maié, Ivan G Costa, Bernd Denecke, Angela Maurer, Claudia Schubert, Kristina Feldberg, Deniz Gezer, Tim H Brümmendorf, Gerhard Müller-Newen, Jiri Mayer, Zdenek Racil, Blanka Kubesova, Trine Knudsen, Anders L Sørensen, Morten Orebo Holmström, Lasse Kjær, Vibe Skov, Thomas Stauffer Larsen, Hans C Hasselbalch, Nicolas Chatain, Steffen Koschmieder
JAK2V617F but not CALR mutations confer increased molecular responses to interferon-α via JAK1/STAT1 activation. Leukemia 33 (4) (2018)

Ivan G Costa.css-eqlu8i{font-size:small;padding-left:4px;} (Ivan Costa)

Publication Activity (10 Years)

Top Topics

Top Venues

Ivan G Costa (Ivan Costa)