Niels Schlusser

open_nipals: An sklearn-compatible Python package for NIPALS dimensionality reduction

Niels Schlusser, Ryan Wall, David R. Ochsenbein

us (code pays fourni par la source)

Peer Review Report For: On the limits of inferring biophysical parameters of RBP-RNA interactions from in vitro RNA Bind’n Seq data [version 3; peer review: 3 approved, 1 not approved]

Niels Schlusser, Mihaela Zavolan

We develop a thermodynamic model describing the binding of RNA binding proteins (RBP) to oligomers in vitro . We apply expectation-maximization to infer the specificity of RBPs, represented as position-specific weight matrices (PWMs), by maximizing the likelihood of RNA Bind’n Seq data …

ch (code pays fourni par la source)

Peer Review Report For: On the limits of inferring biophysical parameters of RBP-RNA interactions from in vitro RNA Bind’n Seq data [version 3; peer review: 2 approved, 1 approved with reservations, 1 not approved]

Niels Schlusser, Mihaela Zavolan

We develop a thermodynamic model describing the binding of RNA binding proteins (RBP) to oligomers in vitro . We apply expectation-maximization to infer the specificity of RBPs, represented as position-specific weight matrices (PWMs), by maximizing the likelihood of RNA Bind’n Seq data …

ch (code pays fourni par la source)

On the limits of inferring biophysical parameters of RBP-RNA interactions from in vitro RNA Bind’n Seq data [version 3; peer review: 1 approved, 2 approved with reservations, 1 not approved]

Niels Schlusser, Mihaela Zavolan

We develop a thermodynamic model describing the binding of RNA binding proteins (RBP) to oligomers in vitro. We apply expectation-maximization to infer the specificity of RBPs, represented as position-specific weight matrices (PWMs), by maximizing the likelihood of RNA Bind’n Seq data from …

open_nipals: An sklearn-compatible Python package for NIPALS dimensionality reduction

Niels Schlusser, Ryan Wall, David R. Ochsenbein

Minor changes to the `setup.cfg` mirrored from the github repo.

ch (code pays fourni par la source)

open_nipals: An sklearn-compatible Python package for NIPALS dimensionality reduction

Niels Schlusser, Ryan Wall, David R. Ochsenbein

Minor changes to the `setup.cfg` mirrored from the github repo.

ch (code pays fourni par la source)

Ribosome profiling reveals extensive translational alterations in steatohepatitis-associated hepatocellular carcinoma

Asier González, Meriç Ataman, Aleksei Mironov, Niels Schlusser et autres

Abstract Hepatocellular carcinoma (HCC) is one the most lethal cancer types. While infections with hepatitis B or hepatitis C viruses remain the primary risk factors for HCC development worldwide, metabolic disease-associated steatohepatitis has become the fastest growing etiology of HCC, particularly in …

es, ch, it (code pays fourni par la source)

open_nipals

Niels Schlusser, David R. Ochsenbein, Ryan Wall

ch (code pays fourni par la source)

Multi-omic assessment of mRNA translation dynamics in liver cancer cell lines

Asier González, Muskan Pandey, Niels Schlusser, Sayanur Rahaman et autres

The limited correlation between mRNA and protein levels within cells highlighted the need to study mechanisms of translational control. To decipher the factors that determine the rates of individual steps in mRNA translation, machine learning approaches are currently applied to large libraries …

es, ch (code pays fourni par la source)

RNA-Seq analysis made easy

Maria Katsantoni, Foivos Gypas, Christina Herrmann, Dominik Bürri et autres

You have some RNA-Seq samples and want to know what's in them? You urgently need to get these RNA-Seq results but your resident bioinformatician is on vacation — again? You have an extensive SRA query with hundreds of libraries to analyze and …

ch (code pays fourni par la source)

The force-force correlator at the hard thermal scale of hot QCD

Eamonn Weitz, Jacopo Ghiglieri, Philipp Schicho, Niels Schlusser

International audience

Current limitations in predicting mRNA translation with deep learning models

Niels Schlusser, Asier González, Muskan Pandey, Mihaela Zavolan

BACKGROUND: The design of nucleotide sequences with defined properties is a long-standing problem in bioengineering. An important application is protein expression, be it in the context of research or the production of mRNA vaccines. The rate of protein synthesis depends on the …

ch, es, ru (code pays fourni par la source)