FG Bioanalytik

10 Items

Recent Submissions
G9a/GLP complex maintains imprinted DNA methylation in embryonic stem cells

Zhang, Tuo ; Termanis, Ausma ; Özkan, Burak ; Bao, Xun X. ; Culley, Jayne ; de Lima Alves, Flavia ; Rappsilber, Juri ; Ramsahoye, Bernard ; Stancheva, Irina (2016-03-24)

DNA methylation at imprinting control regions (ICRs) is established in gametes in a sex-specific manner and has to be stably maintained during development and in somatic cells to ensure the correct monoallelic expression of imprinted genes. In addition to DNA methylation, the ICRs are marked by allele-specific histone modifications. Whether these marks are essential for maintenance of genomic i...

Kicking against the PRCs

Liang, Shih Chieh ; Hartwig, Ben ; Perera, Pumi ; Mora-García, Santiago ; Leau, Erica de ; Thornton, Harry ; Lima Alves, Flavia de ; Rappsilber, Juri ; Yang, Suxin ; James, Geo Velikkakam ; Schneeberger, Korbinian ; Finnegan, E. Jean ; Turck, Franziska ; Goodrich, Justin (2015)

The Polycomb group (PcG) and trithorax group (trxG) genes play crucial roles in development by regulating expression of homeotic and other genes controlling cell fate. Both groups catalyse modifications of chromatin, particularly histone methylation, leading to epigenetic changes that affect gene activity. The trxG antagonizes the function of PcG genes by activating PcG target genes, and conseq...

A single α helix drives extensive remodeling of the proteasome lid and completion of regulatory particle assembly

Tomko, Robert J. ; Taylor, David W. ; Chen, Zhuo A. ; Wang, Hong-Wei ; Rappsilber, Juri ; Hochstrasser, Mark (2015)

Most short-lived eukaryotic proteins are degraded by the proteasome. A proteolytic core particle (CP) capped by regulatory particles (RPs) constitutes the 26S proteasome complex. RP biogenesis culminates with the joining of two large subcomplexes, the lid and base. In yeast and mammals, the lid appears to assemble completely before attaching to the base, but how this hierarchical assembly is en...

Functional inhibition of acid sphingomyelinase by Fluphenazine triggers hypoxia-specific tumor cell death

Klutzny, Saskia ; Lesche, Ralf ; Keck, Matthias ; Kaulfuss, Stefan ; Schlicker, Andreas ; Christian, Sven ; Sperl, Carolyn ; Neuhaus, Roland ; Mowat, Jeffrey ; Steckel, Michael ; Riefke, Björn ; Prechtl, Stefan ; Parczyk, Karsten ; Steigemann, Patrick (2017)

Owing to lagging or insufficient neo-angiogenesis, hypoxia is a feature of most solid tumors. Hypoxic tumor regions contribute to resistance against antiproliferative chemotherapeutics, radiotherapy and immunotherapy. Targeting cells in hypoxic tumor areas is therefore an important strategy for cancer treatment. Most approaches for targeting hypoxic cells focus on the inhibition of hypoxia adap...

Elucidation of orthopoxvirus adaptation mechanisms by proteomics and genomics

Grossegesse, Marica (2018)

Adaptive changes of viruses enable the virus-host coevolution and infection of new host species. While viruses with an RNA genome adapt primarily by genomic variabilities, adaptation mechanisms of viruses with a DNA genome have remained largely elusive. Since genomes of DNA viruses are more stable compared to genomes of RNA viruses, it is assumed that mechanisms other than genomic changes under...

Proteomics of a fuzzy organelle: interphase chromatin

Kustatscher, Georg ; Hégarat, Nadia ; Wills, Karen L. H. ; Furlan, Cristina ; Bukowski-Wills, Jimi-Carlo ; Hochegger, Helfrid ; Rappsilber, Juri (2014)

Chromatin proteins mediate replication, regulate expression, and ensure integrity of the genome. So far, a comprehensive inventory of interphase chromatin has not been determined. This is largely due to its heterogeneous and dynamic composition, which makes conclusive biochemical purification difficult, if not impossible. As a fuzzy organelle, it defies classical organellar proteomics and canno...

Blind testing of cross-linking/mass spectrometry hybrid methods in CASP11

Schneider, Michael ; Belsom, Adam ; Rappsilber, Juri ; Brock, Oliver (2016)

Hybrid approaches combine computational methods with experimental data. The information contained in the experimental data can be leveraged to probe the structure of proteins otherwise elusive to computational methods. Compared with computational methods, the structures produced by hybrid methods exhibit some degree of experimental validation. In spite of these advantages, most hybrid methods h...

Multiclassifier combinatorial proteomics of organelle shadows at the example of mitochondria in chromatin data

Kustatscher, Georg ; Grabowski, Piotr ; Rappsilber, Juri (2016)

Subcellular localization is an important aspect of protein function, but the protein composition of many intracellular compartments is poorly characterized. For example, many nuclear bodies are challenging to isolate biochemically and thus remain inaccessible to proteomics. Here, we explore covariation in proteomics data as an alternative route to subcellular proteomes. Rather than targeting a ...

Transposon-driven transcription is a conserved feature of vertebrate spermatogenesis and transcript evolution

Davis, Matthew P. ; Carrieri, Claudia ; Saini, Harpreet K. ; Dongen, Stijn van ; Leonardi, Tommaso ; Bussotti, Giovanni ; Monahan, Jack M. ; Auchynnikava, Tania ; Bitetti, Angelo ; Rappsilber, Juri ; Allshire, Robin C. ; Shkumatava, Alena ; O'Carroll, Dónal ; Enright, Anton J. (2017)

Spermatogenesis is associated with major and unique changes to chromosomes and chromatin. Here, we sought to understand the impact of these changes on spermatogenic transcriptomes. We show that long terminal repeats (LTRs) of specific mouse endogenous retroviruses (ERVs) drive the expression of many long non-coding transcripts (lncRNA). This process occurs post-mitotically predominantly in sper...

Quality assurance in immunoassay performance – carbamazepine immunoassay format evaluation and application on surface and waste water

Grandke, Julia ; Oberleitner, Lidia ; Resch-Genger, Ute ; Garbe, Leif-Alexander ; Schneider, Rudolf J. (2013)

Carbamazepine (CBZ) is one of the most frequently detected pharmaceuticals in water samples. For the determination of this anthropogenic marker, various immunoassay formats were tested and evaluated in order to identify the most suitable one. For these direct competitive assays, the analyte was labelled with the enzyme horseradish peroxidase (HRP) or alkaline phosphatase (AP), and seven substra...