Contributors: Gabriel Fiorin, Andrea Sanchez-Vallet, Daniela Thomazella, Paula Prado, Leandro Nascimento, Antonio Figueira, Bart Thomma, Goncalo Pereira, Paulo Jose Teixeira
... Source data of the paper "Suppression of plant immunity by fungal chitinase-like effectors".
Contributors: Richard Zimmermann, Regine Stutz
... In mammalian cells, one-third of all polypeptides are transported into/across the ER-membrane via the Sec61-channel. While the Sec61-complex facilitates translocation of all polypeptides with amino-terminal signal peptides (sp) or transmembrane helices, the Sec61-associated TRAP-complex supports translocation of only a subset, i.e. in a substrate-specific manner. To characterize TRAP-dependent precursors, we combined siRNA-mediated TRAP depletion in human cells, label-free quantitative proteomics, and differential expression analysis. The results were validated by western blotting and quantitative RT-PCR as well as under conditions of over-production of TRAP-dependent precursors and their mutated variants in the presence or absence of MG132, a proteasome inhibitor. Sp analysis of TRAP-clients revealed above-average glycine-plus-proline content as the distinguishing feature. Thus, TRAP acts as an sp-receptor on the ER-membrane’s cytosolic face for precursor polypeptides with high glycine-plus-proline content in their sp and triggers substrate-specific (and regulated) opening of the Sec61-channel by its interaction with the ER-lumenal hinge of Sec61α. The work is about to be published under the title Proteomics reveals signal peptide features determining the client specificity in human TRAP-dependent ER protein import by Duy Nguyen, Regine Stutz, Stefan Schorr, Sven Lang, Stefan Pfeffer, Hudson H. Freeze, Friedrich Förster, Volkhard Helms1 Johanna Dudek & Richard Zimmermann Here we present the original western blot data plus additional SP and TMH analyses, which are presented in a pptx figure and a xlsx table, respectively . Additional physicochemical properties of TRAP clients with SP or TMH. In addition to the hydrophobicity score and glycine/proline (GP) content, we determined the ΔGapp values of SP sequences (a) and transmembrane helices (TMH) (b) with the ΔGapp predictor for TM helix insertion (http://dgpred.cbr.su.se) and plotted these values against the relative count (Density). Glycine and glycine plus proline content of human signal peptides. We used custom scripts to compute the glycine (G) and glycine plus proline (GP) content of human SP sequences from UniProtKB entries. GP content was calculated as the total fraction of glycine and proline in the respective sequence. Notably, 1382 SP of a total of 3513 have a GP content of > 15%, the proposed threshold for TRAP involvement and, therefore, potential regulation by phosphorylation and/or calcium binding by TRAP subunit α.
Contributors: Phil Prangnell
... Automated image analysis measurements and final selected images for paper
Contributors: Rola M Farid, Sherif Ashoush, Salwa Youssef
... This study examines the interaction between vitamin D deficiency (VDD) and osteopontin tissue expression in the pathogenesis of preeclampsia.
Contributors: Guangyu Wang
... All data used in the paper except for the original .oir images due to the large size of the files. The pptx. contains all the data in the figures which can be opened with GraghPad Prism.
Contributors: aswin Sundarakrishnan
... The data associated with this manuscript is available here.
Contributors: Ping He, Libo Shan, Pierce Jamieson
... Supplemental data delineating the identifiers of each of the genes referenced in the phylogenetic tree figure.
DDX41 Recognizes RNA/DNA Retroviral Reverse Transcripts and Is Critical for In Vivo Control of Murine Leukemia Virus Infection
Contributors: Spyridon Stavrou
... The data in this file are from the paper: DDX41 Recognizes RNA/DNA Retroviral Reverse Transcripts and Is Critical for In Vivo Control of Murine Leukemia Virus Infection.
Contributors: Daniel Sorensen
... Raw data set for Vit 105 to titanium laser weld manuscript
Access to acute care resources in various income settings to treat new-onset stroke: a survey of acute care providers
Contributors: Clint Hendrikse, Stevan Bruijns, Ramadhan Chunga
... A self-reported cross-sectional survey was conducted of delegates that attended the April 2016 International Conference on Emergency Medicine using the web-based e-Survey client, Survey Monkey Inc. The survey assessed both pre-hospital and in-hospital settings and was piloted before implementation. The survey was distributed and opened by 955 delegates and 382 (40%) responded