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Visualizing the Gas Diffusion Induced Ignition of a Catalytic Reaction

Many surface science experiments within heterogeneous catalysis are now conducted in realistic conditions at higher pressures. At these pressures, localized gas conditions will form throughout the reactor. Understanding these gas conditions and their interaction with the catalyst surface at relevant time scales and with spatial resolution is important. To address this issue, we use a combination o

Extending the theoretical grounding of mobilities research : transport psychology perspectives

This paper reconsiders the new mobilities paradigm and its relevance for the understanding of transport systems and behaviour. It argues that the mobilities field will gain from more systematically drawing on conceptual and empirical insights from psychology to complement insights as mostly derived from sociology, geography, innovation studies, anthropology, cultural studies and continental philos

Creative and crime scene photography : staged patricide and matricide as screen memories in Aida Chehrehgosha’s To Mom, Dad and My Two Brothers

Aida Chehrehgosha’s award-winning photography series To Mom, Dad and My Two Brothers (2008) in which the artist controversially stages the death of her abusive mother and father is examined in this essay as exemplifying a form of screen memories — a conscious psychodynamic strategy, introduced by Sigmund Freud, employed here to both expose and heal traumatic experiences. Challenging the dominant v

Ribo-Seq and RNA-Seq of TMA46 ( DFRP1) and GIR2 ( DFRP2) knockout yeast strains

In eukaryotes, stalled and collided ribosomes are recognized by several conserved multicomponent systems, which either block protein synthesis in situ and resolve the collision locally, or trigger a general stress response. Yeast ribosome-binding GTPases RBG1 (DRG1 in mammals) and RBG2 (DRG2) form two distinct heterodimers with TMA46 (DFRP1) and GIR2 (DFRP2), respectively, both involved in mRNA tr

A standard knockout procedure alters expression of adjacent loci at the translational level

The Saccharomyces cerevisiae gene deletion collection is widely used for functional gene annotation and genetic interaction analyses. However, the standard G418-resistance cassette used to produce knockout mutants delivers strong regulatory elements into the target genetic loci. To date, its side effects on the expression of neighboring genes have never been systematically assessed. Here, using ri

Assessing Ribosome Distribution Along Transcripts with Polarity Scores and Regression Slope Estimates

During translation, the rate of ribosome movement along mRNA varies. This leads to a non-uniform ribosome distribution along the transcript, depending on local mRNA sequence, structure, tRNA availability, and translation factor abundance, as well as the relationship between the overall rates of initiation, elongation, and termination. Stress, antibiotics, and genetic perturbations affecting compos

Translatome and transcriptome analysis of TMA20 (MCT-1) and TMA64 (eIF2D) knockout yeast strains

TMA20 (MCT-1), TMA22 (DENR) and TMA64 (eIF2D) are eukaryotic translation factors involved in ribosome recycling and re-initiation. They operate with P-site bound tRNA in post-termination or (re-)initiation translation complexes, thus participating in the removal of 40S ribosomal subunit from mRNA stop codons after termination and controlling translation re-initiation on mRNAs with upstream open re

Svist4get : A simple visualization tool for genomic tracks from sequencing experiments

Background: High-throughput sequencing often provides a foundation for experimental analyses in the life sciences. For many such methods, an intermediate layer of bioinformatics data analysis is the genomic signal track constructed by short read mapping to a particular genome assembly. There are many software tools to visualize genomic tracks in a web browser or with a stand-alone graphical user i

Aggregation Behavior of Structurally Similar Therapeutic Peptides Investigated by 1H NMR and All-Atom Molecular Dynamics Simulations

Understanding of peptide aggregation propensity is an important aspect in pharmaceutical development of peptide drugs. In this work, methodologies based on all-atom molecular dynamics (AA-MD) simulations and 1H NMR (in neat H2O) were evaluated as tools for identification and investigation of peptide aggregation. A series of structurally similar, pharmaceutically relevant peptides with known differ