SOPs
What is a SOP?Creator: Sonja Steinsiek
Submitter: The JERM Harvester
Creator: Katja Bettenbrock
Submitter: The JERM Harvester
Creator: Martijn Bekker
Submitter: The JERM Harvester
Purpose: PROTEIN EXTRACTION FOR 2-DE BASED PROTEOMIC EXPERIMENTS. 2. Membrane proteins
Creator: Miguel Curto Rubio
Submitter: The JERM Harvester
Purpose: PROTEIN EXTRACTION FOR 2-DE BASED PROTEOMIC EXPERIMENTS. 1. Citosoluble proteins
Creator: Miguel Curto Rubio
Submitter: The JERM Harvester
Purpose: Cation content analysis - protocol
Creator: Clara Navarrete
Submitter: The JERM Harvester
Purpose:
Creator: Jose Ramos
Submitter: The JERM Harvester
SOP for ß-Galactosidase assay.
Creator: Praveen kumar Sappa
Submitter: Praveen kumar Sappa
SOP for shake flask cultivation of B.Subtilis in Bacell-Sysmo
Creator: Praveen kumar Sappa
Submitter: Praveen kumar Sappa
This file describes how to isolate mRNA from E. coli using the kit from Epicentre, for gene expression analysis via RT-PCR
Creator: Sonja Steinsiek
Submitter: Sonja Steinsiek
This document describes the chemostat conditions to run comparable experiments in different bioreactors in different labs.
Creator: Sonja Steinsiek
Submitter: Sonja Steinsiek
SOPs related with medium composition, fermentation and stocking of S. solfataricus.
Creator: Pawel Sierocinski
Submitter: Pawel Sierocinski
MIAPE (Minimum Information About a Proteomics Experiment) is the recommended format for proteomics data in SysMO-SEEK. The document attached provides more information and links to tools and resources.
Creator: Katy Wolstencroft
Submitter: Katy Wolstencroft
Standard procedure regarding intracellular metabolome analysis using GC-MS.
Creator: Pawel Sierocinski
Submitter: Pawel Sierocinski
Protocol for RNA isolation, cDNA synthesis and labeling and hybridization and cleanup of Sulfolobus solfataricus microarray
Creator: Pawel Sierocinski
Submitter: Pawel Sierocinski
Standard operating procedures regarding iTraq based proteomics.
Creator: Pawel Sierocinski
Submitter: Pawel Sierocinski
A model to describe the effect of K+ uptake by KdpFABC on the two-component system KdpD/KdpE, which enables the identification of control principles of the Kdp system
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
The reverse transcriptase synthesizes DNA, which complements the mRNA template (complementary DNA, cDNA). Cy3/Cy5-dCTP are incorporated into cDNA during Reverse transcription. The obtained Cy3/Cy5 cDNA are then competitively hybridised onto Agilent microarray slide and subsequently scanned.
Creator: Praveen kumar Sappa
Submitter: Praveen kumar Sappa
Cells were harvested from culture keeping the cells cold to quench the physiological condition of RNA and the cells were mechanically disrupted. RNA was isolated from the cells by conventional acid-phenol method and the quality was checked by Agilent bioanalyser.
Creator: Praveen kumar Sappa
Submitter: Praveen kumar Sappa
This SOP describes the SUMO procedure for determining B-galactosidase activities.
Creator: Matthew Rolfe
Submitter: Matthew Rolfe
A kinetic model that describess the activation of a dimeric efflux system that could bind either GSH or SLG
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
This SOP defines the format of SOPs used in the SUMO consortium.
Creator: Michael Ederer
Submitter: Michael Ederer
A model for translation elongation, which allows the prediction of how different conditions and parameters affect the rate and throughput of translation.
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
A model to describe aggregation of homomeric protein complexes in mechanosensitive channels in E.coli.
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
Measurement of the transmembrane pH gradient and thus pHi, when the external pH is known.
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
A procedure to analyse the genomic interaction of E.coli RNA polymerase (RNAP) upon methylglyoxal (MG) stress, a toxic keto-aldehyde by-product of metabolism.
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
SOP used for detecting non influential parameters and interactions in non linear dynamical models. These parameters can be estabilished which allows the prioritization of parameters that can be subsequently estimated using robust global optimizations methods.
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
The model describes the series of chemical reactions in MG detoxification pathway, allowing one to predict the flux of all compounds produced during detoxification.
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
Mathematical model of pH buffering, which allows the prediction of how the buffering capacity depends on the cytoplasm's composition, for any number of buffers.
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg
Method of how to perform the purification of glyoxalase II as well as kinetics assays.
Creator: Lisbeth Lyngberg
Submitter: Lisbeth Lyngberg