All public logs
Jump to navigation
Jump to search
Combined display of all available logs of 22111. You can narrow down the view by selecting a log type, the username (case-sensitive), or the affected page (also case-sensitive).
- 10:20, 15 March 2024 WikiSysop talk contribs created page Answers:Malaria Vaccine (Created page with "'''Answers to case study exercise about malaria vaccines''' (NB: numbers etc. found in the databases 11-10-2023): == 1 - What exactly is malaria? == '''1a)''' If you search for "malaria" on NCBIs Taxonomy page, you find some mosquitoes and some protozoans with the Genus name ''Plasmodium''. Clicking the name of one of these (twice) gets you to a page where you can see the ''lineage'': * Genus: ''Plasmodium'' * Phylum: ''Apicomplexa'' * (Super)Kingdom: ''Eukaryota''...")
- 10:18, 15 March 2024 WikiSysop talk contribs created page File:Bepipred results partial ss.png
- 10:18, 15 March 2024 WikiSysop talk contribs uploaded File:Bepipred results partial ss.png
- 10:18, 15 March 2024 WikiSysop talk contribs created page File:PfEMP1 transport.jpg
- 10:18, 15 March 2024 WikiSysop talk contribs uploaded File:PfEMP1 transport.jpg
- 10:17, 15 March 2024 WikiSysop talk contribs created page File:Nm0206-170-F1.jpg
- 10:17, 15 March 2024 WikiSysop talk contribs uploaded File:Nm0206-170-F1.jpg
- 10:16, 15 March 2024 WikiSysop talk contribs created page Exercise:Malaria Vaccine (Created page with "Exercise written by: Thomas Salhøj Rask and [http://www.dtu.dk/service/telefonbog/person?id=25617&cpid=214126&tab=2&qt=dtupublicationquery Henrik Nielsen] — translated, revised and updated to BepiPred 2.0 by [http://www.dtu.dk/service/telefonbog/person?id=18103&cpid=214039&tab=2&qt=dtupublicationquery Rasmus Wernersson] and Henrik Nielsen. The purpose of this exercise is to apply the methods and knowledge you have learned so far on a real biological problem: Taking s...")
- 10:15, 15 March 2024 WikiSysop talk contribs created page PyMOL (Created page with "=PyMOL= [https://teaching.healthtech.dtu.dk/material/36611/PDF/PymolRef.pdf PyMOL quick reference card] <!-- ==Installation== Before you start, you need to install PyMOL. There are three versions available: for Mac OS X, Windows and Linux. Simply click the link to download the relevant version. * [http://www.cbs.dtu.dk/~blicher/Courses/MacPyMOL-v1.3r1-edu.tar.bz2 PyMOL for Mac] * [http://www.cbs.dtu.dk/~blicher/Courses/pymol-v1.3r1-edu-Linux-x86-TclTk8.5.tar.bz2 PyMO...")
- 10:13, 15 March 2024 WikiSysop talk contribs created page File:Struc alig 1k7c 1wab.jpeg
- 10:13, 15 March 2024 WikiSysop talk contribs uploaded File:Struc alig 1k7c 1wab.jpeg
- 10:12, 15 March 2024 WikiSysop talk contribs created page File:1k7c 1wab pymol.png
- 10:12, 15 March 2024 WikiSysop talk contribs uploaded File:1k7c 1wab pymol.png
- 10:12, 15 March 2024 WikiSysop talk contribs created page File:1k7c.png
- 10:12, 15 March 2024 WikiSysop talk contribs uploaded File:1k7c.png
- 10:11, 15 March 2024 WikiSysop talk contribs created page Protein Structure and Visualization Answers (Created page with "=Protein Structure and Visualization - Answers= '''Written by:''' Anne Mølgaard, Thomas Blicher, Rasmus Wernersson (wiki version) == Q1 Rhamnogalacturonan acetylesterase in UniProt == *a) The signal peptide is from residue number 1 to 17. *b) The mature protein is from residue number 18 to 250, which means that the protein consists of 233 residues. *c) The active site is made up of three residues. The first is '''Ser26''', the two others are '''Asp209''' and '''His212'...")
- 10:10, 15 March 2024 WikiSysop talk contribs created page File:RGAE active site.png
- 10:10, 15 March 2024 WikiSysop talk contribs uploaded File:RGAE active site.png
- 10:09, 15 March 2024 WikiSysop talk contribs created page File:1K7C page.png
- 10:09, 15 March 2024 WikiSysop talk contribs uploaded File:1K7C page.png
- 10:09, 15 March 2024 WikiSysop talk contribs created page File:PDB homepage.png
- 10:09, 15 March 2024 WikiSysop talk contribs uploaded File:PDB homepage.png
- 10:08, 15 March 2024 WikiSysop talk contribs created page Protein Structure and Visualization (Created page with "''By Anne Mølgaard and Thomas Holberg Blicher with some updates/editing by Rasmus Wernersson'' == Overview == In this practical you will learn how to * Search the Protein Structure Databank for information. * Critically choose the best structure, when more than one is available. * Visualize a protein structure and highlight features of interest. You will work with the protein Rhamnogalacturonan acetylesterase (RGAE) from the fungus ''Aspergillus aculeatus''. It is one...")
- 09:57, 15 March 2024 WikiSysop talk contribs created page File:NCBI BlastP CLONE12 best hit.png
- 09:57, 15 March 2024 WikiSysop talk contribs uploaded File:NCBI BlastP CLONE12 best hit.png
- 09:56, 15 March 2024 WikiSysop talk contribs created page File:NCBI BlastP CLONE12 rframe1 ORF new version.png
- 09:56, 15 March 2024 WikiSysop talk contribs uploaded File:NCBI BlastP CLONE12 rframe1 ORF new version.png
- 09:56, 15 March 2024 WikiSysop talk contribs created page File:NCBI BlastN CLONE12 Graphic Summary.png
- 09:56, 15 March 2024 WikiSysop talk contribs uploaded File:NCBI BlastN CLONE12 Graphic Summary.png
- 09:55, 15 March 2024 WikiSysop talk contribs created page File:NCBI BlastN CLONE12 new version.png
- 09:55, 15 March 2024 WikiSysop talk contribs uploaded File:NCBI BlastN CLONE12 new version.png
- 09:55, 15 March 2024 WikiSysop talk contribs created page File:Peptidases S8.png
- 09:55, 15 March 2024 WikiSysop talk contribs uploaded File:Peptidases S8.png
- 09:54, 15 March 2024 WikiSysop talk contribs created page ExBlast-Answers (Created page with "Answers to the BLAST exercise, by Henrik Nielsen. Values for database sizes etc. retrieved March 7, 2020 ==Part 1: Your first BLAST search== ===QUESTION 1.1=== * ''what is the identifier (Accession)?'' :OL351605 or M57671 (Note that the latter was also part of the sequence name for your query sequence!) * ''what is the alignment score ("max score")?'' :780 * ''what is the percent identity and query coverage?'' :they are both 100% * ''what is the E-value?'' :0.0 (actua...")
- 09:53, 15 March 2024 WikiSysop talk contribs created page File:BLAST limit search.png
- 09:53, 15 March 2024 WikiSysop talk contribs uploaded File:BLAST limit search.png
- 09:51, 15 March 2024 WikiSysop talk contribs created page File:Homo Ortho Para-log.gif
- 09:51, 15 March 2024 WikiSysop talk contribs uploaded File:Homo Ortho Para-log.gif
- 09:50, 15 March 2024 WikiSysop talk contribs created page File:Tic mark job completed.png
- 09:50, 15 March 2024 WikiSysop talk contribs uploaded File:Tic mark job completed.png
- 09:49, 15 March 2024 WikiSysop talk contribs created page File:Save a copy in drive.png
- 09:49, 15 March 2024 WikiSysop talk contribs uploaded File:Save a copy in drive.png
- 09:49, 15 March 2024 WikiSysop talk contribs created page File:Reconnect to a hosted runtime.png
- 09:49, 15 March 2024 WikiSysop talk contribs uploaded File:Reconnect to a hosted runtime.png
- 09:48, 15 March 2024 WikiSysop talk contribs created page File:Runtime disconnected.png
- 09:48, 15 March 2024 WikiSysop talk contribs uploaded File:Runtime disconnected.png
- 09:48, 15 March 2024 WikiSysop talk contribs created page File:Blast exercise in Colab.png
- 09:48, 15 March 2024 WikiSysop talk contribs uploaded File:Blast exercise in Colab.png
- 09:47, 15 March 2024 WikiSysop talk contribs created page Exercise: BLAST2 (Created page with "Exercise written by [http://www.dtu.dk/service/telefonbog/person?id=18103&cpid=214039&tab=2&qt=dtupublicationquery Rasmus Wernersson] and modified by Henrik Nielsen and Carolina Barra ==Introduction== In this exercise, we will be using BLAST ('''B'''asic '''L'''ocal '''A'''lignment '''S'''earch '''T'''ool) for searching sequence databases such as GenBank (DNA data) and UniProt (protein). When using BLAST for sequence searches it is of utmost importance to be able to cr...")
- 09:45, 15 March 2024 WikiSysop talk contribs created page ExPairwiseAlignment-Answers (Created page with "Svar til parvis alignment øvelsen Note: There is also an English version: ExPairwiseAlignment-AnswersEng. Svar til Parvis Alignment øvelsen ---------------------------------- Af: Rasmus Wernersson & Henrik Nielsen =Question 1= * Which sequence format are the two sequences listed in? FASTA format. =Question 2= Report the following values / observations from the alignment * Alignment score? * Alignment length? * % and fraction Identity (The value reported f...")
