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The measurement of protein dynamics by proteomics to study cell remodeling has seen increased attention over the last years. This development is largely driven by a number of technological advances in proteomics methods. Pulsed stable isotope labeling in cell culture (SILAC) combined with tandem mass tag (TMT) labeling has evolved as a gold standard for profiling protein synthesis and degradation. While the experimental setup is similar to typical proteomics experiments, the data analysis proves more difficult: After peptide identification through search engines, data extraction requires either custom scripted pipelines or tedious manual table manipulations to extract the TMT-labeled heavy and light peaks of interest. To overcome this limitation, which deters researchers from using protein dynamic proteomics, we developed a user-friendly, browser-based application that allows easy and reproducible data analysis without the need for scripting experience. In addition, we provide a python package that can be implemented in established data analysis pipelines. We anticipate that this tool will ease data analysis and spark further research aimed at monitoring protein translation and degradation by proteomics.
MED (Media EDitor) is a program designed to facilitate the transcription of digitized soundfiles into textfiles. It was written by Hans Drexler and Daan Broeder, Max Planck Institute for Psycholinguistics, Nijmegen, The Netherlands. [...] The aim of MED is to facilitate the transcription of sound into text using a single program. It works on the principle of the coexistence and interaction of two basic elements, the waveform display window and the text window. [...] This means that you no longer need to use both a sound editor and a word processor at the same time in order to transcribe digitized speech files. Instead, you can directly type the sound you hear (and see) via MED into the text window. Furthermore, you can directly link sound portions of the waveform display window to text portions of the text window, so that you can easily locate and listen to the original source of your transcription once the links have been set. In this function the waveform display window and the text window virtually interact with each other.
The Child Language Data Exchange System (CHILDES) consists of Codes for the Human Analysis of Transcripts (CHAT), Computerized Language Analysis (CLAN), and a database. There is also an online manual which includes the CHILDES bibliography, the database, and the CHAT conventions as well as the CLAN instructions. The first three parts of this paper concern the CHAT format of transcription, grammatical coding, and analyzing transcripts by using the CLAN programs. The fourth part shows examples of transcribed and coded data.