Altuna Akalin

ResearcherID Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 39

Top Venues

Nature communications

Research square

NAR genomics and bioinformatics

International journal of molecular sciences

Max Delbrück Centrum für Molekulare Medizin Berlin Buch

Universitetet i Bergen (PHD)

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

Affiliation History

Max Delbrück Centrum für Molekulare Medizin Berlin Buch

Germany

Group Leader/Head of Bioinformatics Platform :: Berlin Institute of Medical Systems Biology

Friedrich Miescher Institute for Biomedical Research

Switzerland

Postdoctoral Fellow

Joan and Sanford I Weill Medical College of Cornell University

United States

Senior Research Associate

Joan and Sanford I Weill Medical College of Cornell University

United States

Postdoctoral associate

RIKEN Yokohama Sep 01 2007 - Dec 19 2007

Japan

Visiting PhD Student

Education History

Universitetet i Bergen

Norway

PHD

Sabanci Universitesi

Turkey

BSC

Publications

Trendelina Rrustemi, Katrina Meyer, Yvette Roske, Bora Uyar, Altuna Akalin, Koshi Imami, Yasushi Ishihama, Oliver Daumke, Matthias Selbach
Pathogenic mutations of human phosphorylation sites affect protein-protein interactions. Nature communications 15 (1) (2024)
Trendelina Rrustemi, Katrina Meyer, Yvette Roske, Bora Uyar, Altuna Akalin, Koshi Imami, Yasushi Ishihama, Oliver Daumke, Matthias Selbach
Pathogenic mutations of human phosphorylation sites affect protein-protein interactions. Nature communications 15 (1) (2024)
Dominik Szabó, Vedran Franke, Simona Bianco, Mykhailo Y Batiuk, Eleanor J Paul, Alexander Kukalev, Ulrich G Pfisterer, Ibai Irastorza-Azcarate, Andrea M Chiariello, Samuel Demharter, Luna Zea-Redondo, Jose P López-Atalaya, Mario Nicodemi, Altuna Akalin, Konstantin Khodosevich, Mark A Ungless, Warren Winick-Ng, Ana Pombo
A single dose of cocaine rewires the 3D genome structure of midbrain dopamine neurons. bioRxiv : the preprint server for biology (2024)
Trendelina Rrustemi, Katrina Meyer, Yvette Roske, Bora Uyar, Altuna Akalin, Koshi Imami, Yasushi Ishihama, Oliver Daumke, Matthias Selbach
Pathogenic mutations of human phosphorylation sites affect protein-protein interactions. Nature communications 15 (1) (2024)
Dominik Szabó, Vedran Franke, Simona Bianco, Mykhailo Y Batiuk, Eleanor J Paul, Alexander Kukalev, Ulrich G Pfisterer, Ibai Irastorza-Azcarate, Andrea M Chiariello, Samuel Demharter, Luna Zea-Redondo, Jose P López-Atalaya, Mario Nicodemi, Altuna Akalin, Konstantin Khodosevich, Mark A Ungless, Warren Winick-Ng, Ana Pombo
A single dose of cocaine rewires the 3D genome structure of midbrain dopamine neurons. bioRxiv : the preprint server for biology (2024)
Trendelina Rrustemi, Katrina Meyer, Yvette Roske, Bora Uyar, Altuna Akalin, Koshi Imami, Yasushi Ishihama, Oliver Daumke, Matthias Selbach
Pathogenic mutations of human phosphorylation sites affect protein-protein interactions. Nature communications 15 (1) (2024)
Dominik Szabó, Vedran Franke, Simona Bianco, Mykhailo Y Batiuk, Eleanor J Paul, Alexander Kukalev, Ulrich G Pfisterer, Ibai Irastorza-Azcarate, Andrea M Chiariello, Samuel Demharter, Luna Zea-Redondo, Jose P López-Atalaya, Mario Nicodemi, Altuna Akalin, Konstantin Khodosevich, Mark A Ungless, Warren Winick-Ng, Ana Pombo
A single dose of cocaine rewires the 3D genome structure of midbrain dopamine neurons. bioRxiv : the preprint server for biology (2024)
Trendelina Rrustemi, Katrina Meyer, Yvette Roske, Bora Uyar, Altuna Akalin, Koshi Imami, Yasushi Ishihama, Oliver Daumke, Matthias Selbach
Pathogenic mutations of human phosphorylation sites affect protein-protein interactions. Nature communications 15 (1) (2024)
Florian Full, Stephanie Walter, Eva Neugebauer, Jiang Tan, Nir Drayman, Vedran Franke, SavaÅŸ Tay, Markus Landthaler, Altuna Akalin, Armin Ensser, Emanuel Wyler
Herpesviruses mimic zygotic genome activation to promote viral replication. Research square (2023)
Lisa-Marie Appel, Vedran Franke, Johannes Benedum, Irina Grishkovskaya, Xué Strobl, Anton A Polyansky, Gregor Ammann, Sebastian Wolfgang Platzer, Andrea Neudolt, Anna Wunder, Lena Walch, Stefanie Kaiser, Bojan Zagrovic, Kristina Djinovic-Carugo, Altuna Akalin, Dea Slade
The SPOC domain is a phosphoserine binding module that bridges transcription machinery with co- and post-transcriptional regulators. Nature communications 14 (1) (2023)
Florian Full, Stephanie Walter, Eva Neugebauer, Jiang Tan, Nir Drayman, Vedran Franke, SavaÅŸ Tay, Markus Landthaler, Altuna Akalin, Armin Ensser, Emanuel Wyler
Herpesviruses mimic zygotic genome activation to promote viral replication. Research square (2023)
Lisa-Marie Appel, Vedran Franke, Johannes Benedum, Irina Grishkovskaya, Xué Strobl, Anton A Polyansky, Gregor Ammann, Sebastian Wolfgang Platzer, Andrea Neudolt, Anna Wunder, Lena Walch, Stefanie Kaiser, Bojan Zagrovic, Kristina Djinovic-Carugo, Altuna Akalin, Dea Slade
The SPOC domain is a phosphoserine binding module that bridges transcription machinery with co- and post-transcriptional regulators. Nature communications 14 (1) (2023)
Lisa-Marie Appel, Vedran Franke, Johannes Benedum, Irina Grishkovskaya, Xué Strobl, Anton A Polyansky, Gregor Ammann, Sebastian Wolfgang Platzer, Andrea Neudolt, Anna Wunder, Lena Walch, Stefanie Kaiser, Bojan Zagrovic, Kristina Djinovic-Carugo, Altuna Akalin, Dea Slade
The SPOC domain is a phosphoserine binding module that bridges transcription machinery with co- and post-transcriptional regulators. Nature communications 14 (1) (2023)
Joanna Schneider, Devakumar Sundaravinayagam, Alexander Blume, Andreas Marg, Stefanie Grunwald, Eric Metzler, Helena Escobar, Stefanie Müthel, Haicui Wang, Tobias Wollersheim, Steffen Weber-Carstens, Altuna Akalin, Michela Di Virgilio, Baris Tursun, Simone Spuler
Disintegration of the NuRD Complex in Primary Human Muscle Stem Cells in Critical Illness Myopathy. International journal of molecular sciences 24 (3) (2023)
Florian Full, Stephanie Walter, Eva Neugebauer, Jiang Tan, Nir Drayman, Vedran Franke, SavaÅŸ Tay, Markus Landthaler, Altuna Akalin, Armin Ensser, Emanuel Wyler
Herpesviruses mimic zygotic genome activation to promote viral replication. Research square (2023)
Rafael R C Cuadrat, Adelheid Kratzer, Hector Giral Arnal, Anja C Rathgeber, Katarzyna Wreczycka, Alexander Blume, Irem B Gündüz, Veronika Ebenal, Tiina Mauno, Brendan Osberg, Minoo Moobed, Johannes Hartung, Kai Jakobs, Claudio Seppelt, Denitsa Meteva, Arash Haghikia, David M Leistner, Ulf Landmesser, Altuna Akalin
Cardiovascular disease biomarkers derived from circulating cell-free DNA methylation. NAR genomics and bioinformatics 5 (2) (2023)
Florian Full, Stephanie Walter, Eva Neugebauer, Jiang Tan, Nir Drayman, Vedran Franke, SavaÅŸ Tay, Markus Landthaler, Altuna Akalin, Armin Ensser, Emanuel Wyler
Herpesviruses mimic zygotic genome activation to promote viral replication. Research square (2023)
Joanna Schneider, Devakumar Sundaravinayagam, Alexander Blume, Andreas Marg, Stefanie Grunwald, Eric Metzler, Helena Escobar, Stefanie Müthel, Haicui Wang, Tobias Wollersheim, Steffen Weber-Carstens, Altuna Akalin, Michela Di Virgilio, Baris Tursun, Simone Spuler
Disintegration of the NuRD Complex in Primary Human Muscle Stem Cells in Critical Illness Myopathy. International journal of molecular sciences 24 (3) (2023)
Lisa-Marie Appel, Vedran Franke, Johannes Benedum, Irina Grishkovskaya, Xué Strobl, Anton A Polyansky, Gregor Ammann, Sebastian Wolfgang Platzer, Andrea Neudolt, Anna Wunder, Lena Walch, Stefanie Kaiser, Bojan Zagrovic, Kristina Djinovic-Carugo, Altuna Akalin, Dea Slade
The SPOC domain is a phosphoserine binding module that bridges transcription machinery with co- and post-transcriptional regulators. Nature communications 14 (1) (2023)
Rafael R C Cuadrat, Adelheid Kratzer, Hector Giral Arnal, Anja C Rathgeber, Katarzyna Wreczycka, Alexander Blume, Irem B Gündüz, Veronika Ebenal, Tiina Mauno, Brendan Osberg, Minoo Moobed, Johannes Hartung, Kai Jakobs, Claudio Seppelt, Denitsa Meteva, Arash Haghikia, David M Leistner, Ulf Landmesser, Altuna Akalin
Cardiovascular disease biomarkers derived from circulating cell-free DNA methylation. NAR genomics and bioinformatics 5 (2) (2023)
Rafael R C Cuadrat, Adelheid Kratzer, Hector Giral Arnal, Anja C Rathgeber, Katarzyna Wreczycka, Alexander Blume, Irem B Gündüz, Veronika Ebenal, Tiina Mauno, Brendan Osberg, Minoo Moobed, Johannes Hartung, Kai Jakobs, Claudio Seppelt, Denitsa Meteva, Arash Haghikia, David M Leistner, Ulf Landmesser, Altuna Akalin
Cardiovascular disease biomarkers derived from circulating cell-free DNA methylation. NAR genomics and bioinformatics 5 (2) (2023)
Lisa-Marie Appel, Vedran Franke, Johannes Benedum, Irina Grishkovskaya, Xué Strobl, Anton A Polyansky, Gregor Ammann, Sebastian Wolfgang Platzer, Andrea Neudolt, Anna Wunder, Lena Walch, Stefanie Kaiser, Bojan Zagrovic, Kristina Djinovic-Carugo, Altuna Akalin, Dea Slade
The SPOC domain is a phosphoserine binding module that bridges transcription machinery with co- and post-transcriptional regulators. Nature communications 14 (1) (2023)
Florian Full, Stephanie Walter, Eva Neugebauer, Jiang Tan, Nir Drayman, Vedran Franke, SavaÅŸ Tay, Markus Landthaler, Altuna Akalin, Armin Ensser, Emanuel Wyler
Herpesviruses mimic zygotic genome activation to promote viral replication. Research square (2023)
Joanna Schneider, Devakumar Sundaravinayagam, Alexander Blume, Andreas Marg, Stefanie Grunwald, Eric Metzler, Helena Escobar, Stefanie Müthel, Haicui Wang, Tobias Wollersheim, Steffen Weber-Carstens, Altuna Akalin, Michela Di Virgilio, Baris Tursun, Simone Spuler
Disintegration of the NuRD Complex in Primary Human Muscle Stem Cells in Critical Illness Myopathy. International journal of molecular sciences 24 (3) (2023)
Nikolai Schleussner, Pierre Cauchy, Vedran Franke, Maciej Giefing, Oriol Fornes, Naveen Vankadari, Salam A Assi, Mariantonia Costanza, Marc A Weniger, Altuna Akalin, Ioannis Anagnostopoulos, Thomas Bukur, Marco G Casarotto, Frederik Damm, Oliver Daumke, Benjamin Edginton-White, J Christof M Gebhardt, Michael Grau, Stephan Grunwald, Martin-Leo Hansmann, Sylvia Hartmann, Lionel Huber, Eva Kärgel, Simone Lusatis, Daniel Noerenberg, Nadine Obier, Ulrich Pannicke, Anja Pfaus, Anja Reisser, Andreas Rosenwald, Klaus Schwarz, Srinivasan Sundararaj, Andre Weilemann, Wiebke Winkler, Wendan Xu, Georg Lenz, Klaus Rajewsky, Wyeth W Wasserman, Peter N Cockerill, Claus Scheidereit, Reiner Siebert, Ralf Küppers, Rudolf Grosschedl, Martin Janz, Constanze Bonifer, Stephan Mathas
Transcriptional reprogramming by mutated IRF4 in lymphoma. Nature communications 14 (1) (2023)
Johannes Benedum, Vedran Franke, Lisa-Marie Appel, Lena Walch, Melania Bruno, Rebecca Schneeweiss, Juliane Gruber, Helena Oberndorfer, Emma Frank, Xué Strobl, Anton A Polyansky, Bojan Zagrovic, Altuna Akalin, Dea Slade
The SPOC proteins DIDO3 and PHF3 co-regulate gene expression and neuronal differentiation. Nature communications 14 (1) (2023)
Jan Dohmen, Artem Baranovskii, Jonathan Ronen, Bora Uyar, Vedran Franke, Altuna Akalin
Identifying tumor cells at the single-cell level using machine learning. Genome biology 23 (1) (2022)
Artem Baranovskii, Irem B Gündüz, Vedran Franke, Bora Uyar, Altuna Akalin
Multi-Omics Alleviates the Limitations of Panel Sequencing for Cancer Drug Response Prediction. Cancers 14 (22) (2022)
Lisa-Marie Appel, Vedran Franke, Melania Bruno, Irina Grishkovskaya, Aiste Kasiliauskaite, Tanja Kaufmann, Ursula E Schoeberl, Martin G Puchinger, Sebastian Kostrhon, Carmen Ebenwaldner, Marek Sebesta, Etienne Beltzung, Karl Mechtler, Gen Lin, Anna Vlasova, Martin Leeb, Rushad Pavri, Alexander Stark, Altuna Akalin, Richard Stefl, Carrie Bernecky, Kristina Djinovic-Carugo, Dea Slade
PHF3 regulates neuronal gene expression through the Pol II CTD reader domain SPOC. Nature communications 12 (1) (2021)
Warren Winick-Ng, Alexander Kukalev, Izabela Harabula, Luna Zea-Redondo, Dominik Szabó, Mandy Meijer, Leonid Serebreni, Yingnan Zhang, Simona Bianco, Andrea Maria Chiariello, Ibai Irastorza-Azcarate, Christoph J Thieme, Thomas M Sparks, Sílvia Carvalho, Luca Fiorillo, Francesco Musella, Ehsan Irani, Elena Torlai Triglia, Aleksandra A Kolodziejczyk, Andreas Abentung, Galina Apostolova, Eleanor J Paul, Vedran Franke, Rieke Kempfer, Altuna Akalin, Sarah A Teichmann, Georg Dechant, Mark A Ungless, Mario Nicodemi, Lonnie Welch, Gonçalo Castelo-Branco, Ana Pombo
Cell-type specialization is encoded by specific chromatin topologies. Nature 599 (7886) (2021)
Marina Kolesnichenko, Nadine Mikuda, Uta E Höpken, Eva Kärgel, Bora Uyar, Ahmet Bugra Tufan, Maja Milanovic, Wei Sun, Inge Krahn, Kolja Schleich, Linda von Hoff, Michael Hinz, Michael Willenbrock, Sabine Jungmann, Altuna Akalin, Soyoung Lee, Ruth Schmidt-Ullrich, Clemens A Schmitt, Claus Scheidereit
Transcriptional repression of NFKBIA triggers constitutive IKK- and proteasome-independent p65/RelA activation in senescence. The EMBO journal 40 (6) (2021)
Wolfgang Kopp, Remo Monti, Annalaura Tamburrini, Uwe Ohler, Altuna Akalin
Deep learning for genomics using Janggu. Nature communications 11 (1) (2020)
Minchul Kim, Vedran Franke, Bettina Brandt, Elijah David Lowenstein, Verena Schöwel, Simone Spuler, Altuna Akalin, Carmen Birchmeier
Single-nucleus transcriptomics reveals functional compartmentalization in syncytial skeletal muscle cells. Nature communications 11 (1) (2020)
Jonathan Ronen, Sikander Hayat, Altuna Akalin
Evaluation of colorectal cancer subtypes and cell lines using deep learning. Life science alliance 2 (6) (2019)
Emanuel Wyler, Vedran Franke, Jennifer Menegatti, Christine Kocks, Anastasiya Boltengagen, Samantha Praktiknjo, Barbara Walch-Rückheim, Jens Bernhard Bosse, Nikolaus Rajewsky, Friedrich Grässer, Altuna Akalin, Markus Landthaler
Single-cell RNA-sequencing of herpes simplex virus 1-infected cells connects NRF2 activation to an antiviral program. Nature communications 10 (1) (2019)
Linda von Hoff, Eva Kärgel, Vedran Franke, Erik McShane, Kathrin W Schulz-Beiss, Giannino Patone, Nikolai Schleussner, Marina Kolesnichenko, Norbert Hübner, Oliver Daumke, Matthias Selbach, Altuna Akalin, Stephan Mathas, Claus Scheidereit
Autocrine LTA signaling drives NF-κB and JAK-STAT activity and myeloid gene expression in Hodgkin lymphoma. Blood 133 (13) (2019)
Jonathan Ronen, Altuna Akalin
netSmooth: Network-smoothing based imputation for single cell RNA-seq. F1000Research 7 (2018)
Jonathan Ronen, Altuna Akalin
netSmooth: Network-smoothing based imputation for single cell RNA-seq. F1000Research (2018)
Jonathan Ronen, Altuna Akalin
netSmooth: Network-smoothing based imputation for single cell RNA-seq. F1000Research (2018)

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Publication Activity (10 Years)

Top Topics

Top Venues

Altuna Akalin