SOPs

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

For the study of mRNA decay rates, transcription was inhibited with ActinomycinD, and RNA splicing with Sinefungin, at different time points, in the Matthews lab. rRNA depleted RNA was extracted from each of the samples in the Clayton lab, and sent for deep sequencing at the BioQuant facility in Heidelberg

Sample preparation procedure for metabolic footprint analysis on T. b. brucei 427 using LC/MS

No description specified

Winter conditions for 5 weeks (6th october – 10th November):

  • Light on 12 hours per day
  • Turn off water heating
  • Feeding probably needs to be adjusted according to lower metabolism and feed intake in cold water

Spring condition (10th of November – 15th of December):

  • Water heating on
  • constant light (24hrs/day)

Vaccination (when and by whom?)

Transfer to sea-water (15th of December)

Last sampling for GenoSysFat in sea water (5th January – 25th of January).

Source: email with subject ...

This is the Jupyter Notebook to allow editing and working with the code. It is a simple example of how a Selwyn test can look like if it is passed (1.) or failed (2.).

This is the pdf of the Jupyter Notebook to allow looking at the notebook without installing anything. It is a simple example of how a Selwyn test can look like if it is passed (1.) or failed (2.).

No description specified

Creator: Michael Kohlstedt

Submitter: Michael Kohlstedt

This is a well-established, classical genetic method of constructing chromosomal monolysogenic fusions to a promoterless lacZ gene.

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

Creator: Gudrun Gygli

Submitter: Gudrun Gygli

No description specified

Initial configuration and parameters of the Bioleaching

No description specified
No description specified

Creators: Katrin Ripken, Esther Wenzel, Sarah Kirstein

Submitter: Sarah Kirstein

sampling procedure for mineral containing leaching experiments

No description specified

Method extraction of intracellular metabolites in Lactococcus lactis

No description specified
No description specified

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.

SOP describing how to perform Dynamic Light Scattering (DLS) measurements with Gre2p in cuvettes using a Zetasizer Nano DLS reader.

SOP describing how to perform activity measurements (inital rates) with Gre2p in multiwell plates (96w) using an UV-Vis Plate reader (Synergy H1).

Standard Operating Procedure describing the process and software used in generating a Genome Scale Metabolic model of M. hyopneumoniae. Used software: Pathway tools PathLogic Cobrapy the Cobra Toolbox libSBML

Standard Operating Procedure for human genomic DNA extraction ( copied from GEO DataSets GSM1375121)

Creators: Olga Krebs, Christiane Opitz

Submitter: Olga Krebs

SOP describing how to perform an ITC (recurrent) single injections experiment with a MicroCal PEAQ ITC by Malvern.

SOP describing how to perform specific activity measurements with Gre2p in multiwell plates (96w) using an UV-Vis Plate reader (Synergy H1).

SOP describing application of the Induced fit docking workflow to Trypanosoma and Leishmania alpha-tubulin receptors.

Associated library SOP file with metadata template.

Detailed description of the methods applied for metabolomic analyses of P. cordatum heat stress response

Creator: Carsten Reuse

Submitter: Carsten Reuse

Oxygen gradients were developed as a quick and easy way to simultaneously adapt (recombinant) strains to decreasing levels of oxygen and monitor their progress over multiple days. This SOP can be used for o/n checks or for adaptation experiments spanning over multiple days. For the latter, a time-lapse camera setup is recommended. This SOP can also be applied to check the oxygen requirements of unknown strains.

Creators: Linde Kampers, Fons Stams

Submitter: Linde Kampers

General SOP for the webPIPSA workflow to study electrostatic potential differences of full alpha-tubulin homology models and various putative binding site regions

Detailed description of the methods applied for proteomic analyses of P. cordatum heat stress response

Creator: Lars Wöhlbrand

Submitter: Lars Wöhlbrand

SOP for protein preparation steps performed for alpha-tubulin homology models (hydrogen addition, hydrogen bonding network optimization and energy minimization)

No description specified

Creators: Katrin Ripken, Esther Wenzel, Sarah Kirstein

Submitter: Sarah Kirstein

SOP for bioleaching experiments carried out for microscopy analysis at UDE

No description specified

This protocol describes the analysis of RNA-Seq data to identify differential expressed genes between two samples. The protocol is simply the analysis of the data and do not include the sequencing protocol.

Creator: Vânia Pobre

Submitter: Vânia Pobre

No description specified

Creators: Sarah Kirstein, Katrin Ripken, Esther Wenzel

Submitter: Sarah Kirstein

ClosTron mutants should always be subjected to Southern blot analysis to ensure that only one intron insertion has occurred.

Creators: Ying Zhang, Nigel Minton

Submitter: Ying Zhang

No description specified

Standard Operating Procedure (SOP) for integration of MESI-STRAT sequence data stored in MESI-SEEK into ENA

SOPs related with medium composition, fermentation and stocking of S. solfataricus.

Standard procedure regarding intracellular metabolome analysis using GC-MS.

Protocol for RNA isolation, cDNA synthesis and labeling and hybridization and cleanup of Sulfolobus solfataricus microarray

Standard operating procedures regarding iTraq based proteomics.

No description specified
No description specified

Creator: Theresa Kouril

Submitter: Theresa Kouril

This SOP describes the SUMO procedure for determining B-galactosidase activities.

This protocol describes the transcriptional profiling of E. coli cultures using microarrays. The protocol utilises RNA isolated as described in another SOP (SUMO RNA isolation from E. coli) and with hybridisation to Ocimum Ocichip E. coli K-12 microarrays.

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