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Exon–Intron differential analysis reveals the role of competing endogenous RNAs in post-transcriptional regulation of translation

Munz, Nicolas ; Cascione, Luciano ; Parmigiani, Luca ; Tarantelli, Chiara ; Rinaldi, Andrea ; Cmiljanovic, Natasa ; Cmiljanovic, Vladimir ; Giugno, Rosalba ; Bertoni, Francesco ; Napoli, Sara

In: Non-coding RNA, 2021, vol. 7, no. 2, p. 13

Stressful conditions induce the cell to save energy and activate a rescue program modulated by mammalian target of rapamycin (mTOR). Along with transcriptional and translational regulation, the cell relies also on post-transcriptional modulation to quickly adapt the translation of essential proteins. MicroRNAs play an important role in the regulation of protein translation, and their...

jSplice: a high-performance method for accurate prediction of alternative splicing events and its application to large-scale renal cancer transcriptome data

Christinat, Yann ; Pawłowski, Rafał ; Krek, Wilhelm

In: Bioinformatics, 2016, vol. 32, no. 14, p. 2111-2119

ASAP: a web-based platform for the analysis and interactive visualization of single-cell RNA-seq data

Gardeux, Vincent ; David, Fabrice P A. ; Shajkofci, Adrian ; Schwalie, Petra C. ; Deplancke, Bart ; Stegle, Oliver ; Stegle, Oliver

In: Bioinformatics, 2017, vol. 33, no. 19, p. 3123-3125

Automatic module selection from several microarray gene expression studies

Zollinger, Alix ; Zollinger, Alix ; Davison, Anthony C. ; Goldstein, Darlene R.

In: Biostatistics, 2018, vol. 19, no. 2, p. 153-168

Molecular classification of diffuse cerebral WHO grade II/III gliomas using genome- and transcriptome-wide profiling improves stratification of prognostically distinct patient groups

Weller, Michael ; Weber, Ruthild ; Willscher, Edith ; Riehmer, Vera ; Hentschel, Bettina ; Kreuz, Markus ; Felsberg, Jörg ; Beyer, Ulrike ; Löffler-Wirth, Henry ; Kaulich, Kerstin ; Steinbach, Joachim ; Hartmann, Christian ; Gramatzki, Dorothee ; Schramm, Johannes ; Westphal, Manfred ; Schackert, Gabriele ; Simon, Matthias ; Martens, Tobias ; Boström, Jan ; Hagel, Christian ; Sabel, Michael ; Krex, Dietmar ; Tonn, Jörg ; Wick, Wolfgang ; Noell, Susan ; Schlegel, Uwe ; Radlwimmer, Bernhard ; Pietsch, Torsten ; Loeffler, Markus ; von Deimling, Andreas ; Binder, Hans ; Reifenberger, Guido

In: Acta Neuropathologica, 2015, vol. 129, no. 5, p. 679-693

Bioinformatics and HIV Latency

Ciuffi, Angela ; Mohammadi, Pejman ; Golumbeanu, Monica ; di Iulio, Julia ; Telenti, Amalio

In: Current HIV/AIDS Reports, 2015, vol. 12, no. 1, p. 97-106

NGS-pipe: a flexible, easily extendable and highly configurable framework for NGS analysis

Singer, Jochen ; Ruscheweyh, Hans-Joachim ; Hofmann, Ariane L. ; Thurnherr, Thomas ; Singer, Franziska ; Toussaint, Nora C. ; Ng, Charlotte K Y. ; Piscuoglio, Salvatore ; Beisel, Christian ; Christofori, Gerhard ; Dummer, Reinhard ; Hall, Michael N. ; Krek, Wilhelm ; Levesque, Mitchell P. ; Manz, Markus G. ; Moch, Holger ; Papassotiropoulos, Andreas ; Stekhoven, Daniel J. ; Wild, Peter ; Wüst, Thomas ; Rinn, Bernd ; Beerenwinkel, Niko ; Berger, Bonnie ; Berger, Bonnie

In: Bioinformatics, 2018, vol. 34, no. 1, p. 107-108

Detection of periodic patterns in microarray data reveals novel oscillating transcripts of biological rhythms in Ciona intestinalis

Matsumae, Hiromi ; Ishiwata, Ryosuke ; Minamoto, Toshifumi ; Ishida, Norio ; Ogishima, Soichi ; Tanaka, Hiroshi

In: Artificial Life and Robotics, 2015, vol. 20, no. 4, p. 347-352

Genetic differentiation in life history traits and thermal stress performance across a heterogeneous dune landscape in Arabidopsis lyrata

Wos, Guillaume ; Willi, Yvonne

In: Annals of Botany, 2018, vol. 122, no. 3, p. 473-484

Genome-Wide Transcriptional Profiling and Structural Magnetic Resonance Imaging in the Maternal Immune Activation Model of Neurodevelopmental Disorders

Richetto, Juliet ; Chesters, Robert ; Cattaneo, Annamaria ; Labouesse, Marie A. ; Gutierrez, Ana Maria Carrillo ; Wood, Tobias C. ; Luoni, Alessia ; Meyer, Urs ; Vernon, Anthony ; Riva, Marco A.

In: Cerebral Cortex, 2017, vol. 27, no. 6, p. 3397-3413