SOPs

What is a SOP?
327 SOPs visible to you, out of a total of 599

Protocol for the extraction of biomolecules (DNA,RNA,protein,metabolties) from the same sample. Originally intended for lipid accumulating organisms (LAO) from wastewater treatment plant samples. So far succesfully used for pelleted cells from planktonic cultures.

Describes the workflow used for preparation of a 16S rRNA gene amplicon (V3-V4 region) Library for sequencing on a MiSeq platform (Illumina) using V3 sequencing chemistry with 300 base pairs paired-end reads.

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 describes the in silico ADME-Tox property prediction with QikProp for prepared pteridine ligands.

A model to describe aggregation of homomeric protein complexes in mechanosensitive channels in E.coli.

Creator: Lisbeth Lyngberg

Submitter: Lisbeth Lyngberg

SOP for measurement of ALD activity in extracts.

Describes the steps required in order to detect and quantify alcohols and other volatile compounds in microbial culture supernatants by gas chromatography with a flame-ionization detector (GC-FID).

Creator: Maximilian Bahls

Submitter: Maximilian Bahls

Method for analysis of various organic acids in the medium

Creator: Martijn Bekker

Submitter: The JERM Harvester

Measurements of K+ retained in the cytoplasm using flame photometry.

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

Master Bash script to launch Molecular Dynamics when running the Analysis part of Simulation Foundry. Make sure you followed "Preparations" instructions! Read the Manual!

Creator: Gudrun Gygli

Submitter: Gudrun Gygli

Assay methodologies for individual glycolytic isoenzymes from the Mendes Group, University of Manchester, UK

Creator: Hanan Messiha

Submitter: Walter Glaser

Protocol for transfer of plasmids into Clostridium acetobutylicum ATCC 824 by electroporation

Creators: None

Submitter: Ying Zhang

Purpose: Cation content analysis - protocol

Creator: Clara Navarrete

Submitter: The JERM Harvester

The reverse transcriptase synthesizes DNA, which complements the mRNA template.

Creator: Lisbeth Lyngberg

Submitter: Lisbeth Lyngberg

No description specified

Cloning and heterologous expression of gluconeogenic enzymes from S. solfataricus in E. coli

A refined and streamlined procedure to generate mutant in a wide range of different clostridial species, using group II intron retargeting methodologies.

Creators: Ying Zhang, Nigel Minton

Submitter: Ying Zhang

No description specified

To induce kdpFABC expression, cells are cultivated in K10 minimal medium (10mM K+) were shifted into K+ limiting growth medium (K0), containing 20 μM K+ by filtration.

Creator: Lisbeth Lyngberg

Submitter: Lisbeth Lyngberg

SOP for the cultivation conditions of Plasmodium falciparum, including the protocol for synchronisation.

This method describes how to derivatize the N-glutathionylspermidine and trypanothione produced by T. brucei trypanothione synthetase under in vivo-like conditions

This is the Jupyter Notebook to allow editing and working with the code.

Design an initial rate experiment in four steps

This script aims to help you design high-quality initial rate experiments. It uses the Michaelis-Menten equation to simulate data for an enzyme with unknown enzyme reaction parameters. Four steps are needed:

  1. Estimate the enzyme reaction parameters

Input: estimates of Km and vmax

and indicate the enzyme concentration concentration you are planning to use. If you have no ...

This is the pdf of the Jupyter Notebook to allow looking at the notebook without installing anything.

Design an initial rate experiment in four steps

This script aims to help you design high-quality initial rate experiments. It uses the Michaelis-Menten equation to simulate data for an enzyme with unknown enzyme reaction parameters. Four steps are needed: 1. Estimate the enzyme reaction parameters

Input: estimates of Km and vmax

and indicate the enzyme concentration concentration you are planning ...

Sample preparation - SOP for sampling, preparation of cell-free extracts, and determination of total extracted protein

Creator: Femke Mensonides

Submitter: Maksim Zakhartsev

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