Difference between revisions of "Main Page"

Revision as of 16:30, 28 February 2018

LipidXplorer Wiki

News

2016-05-09 New release: LipidXplorer Version 1.2.7

The new version LipidXplorer v1.2.7 can now be downloaded. It includes some minor bug fixes and some speed improvements for MFQL lipid identification.

LXMerge: A tool for merging multiple results

Get LipidXplorer

If you are on Windows you can try the Single file installer for Windows

LipidXplorer is published under GPL and available here: [LipidXplorer on Sourceforge]. Check out the LipidXplorer installation instructions for help.

Feature suggestions

LipidXplorer will be further developed all the time. If you have suggestions for useful features, please write to the LipidXplorer mailing list and we will post them here. We also will post a status report on the suggested features: the LipidXplorer wishlist.

LipidXplorer MFQL Bibliography

Yadav S, Garner K, Georgiev P, Li M, Gomez-Espinosa E, Panda A, Mathre S, Okkenhaug H, Cockcroft S and Raghu P: RDGBα, a PI-PA transfer protein regulates G-protein coupled PtdIns(4,5)P2 signalling during Drosophila phototransduction JCS 2015 July

Khaliullina H, Bilgin M, Sampaio JL, Shevchenko A, Eaton S:Endocannabinoids are conserved inhibitors of the Hedgehog pathway PNAS 2015 Feb 2

Hebbar S, Schulz W D, Sauer U and Schwudke D :Laser Capture Microdissection Coupled with On-Column Extraction LC-MSn Enables Lipidomics of Fluorescently Labeled Drosophila Neurons Anal. Chem. 2014 May 12, 86(11)

Papan C, Penkov S, Herzog R, Thiele C, Kurzchalia T, Shevchenko A:Systematic screening for novel lipids by shotgun lipidomics. Anal. Chem. 2014 Jan 28, 86(5)

Gaessler J, Bornstein T D, Goel D, Bhalla V P, Lohmann T, Wolf T, Koch M, Qin Y, Licinio J, Wong M-L, Chavakis T, Xu A, Shevchenko A, Schuhmann K, Schwarz P E H, Patel A, Bornstein S R:Lipidomic profiling before and after Roux-en-Y gastric bypass in obese patients with diabetes The Pharmacogenomics Journal 2013 Dec 24

Herzog R, Schwudke D, Shevchenko A:UNIT 14.12 LipidXplorer: Software for Quantitative Shotgun Lipidomics Compatible with Multiple Mass Spectrometry Platforms Current Protocols in Bioinformatics 2013 Oct 15

Contact

For any questions and suggestions please put them on the [LipidXplorer Google Group]

If you do not want to join google, please write us (mirandaa@mpi-cbg.de or herzog@mpi-cbg.de) an email and I'll add you to the group.

If you want to contribute to the Wiki please write to mirandaa@mpi-cbg.de or herzog@mpi-cbg.de or also to the google group.

Known bugs

Please check out the [LipidXplorer Google Group] to be up-to-date on found bugs.

Bug reports

Please send Bug reports directly to mirandaa@mpi-cbg.de

Example spectra

Example spectra for the LipidXplorer tutorial

Spectra of E.coli acquired on the LTQ Orbitrap with different resolution settings:File:Spectra tutorial.zip

All spectra used in the LipidXplorer article

Spectra of E.coli and bovine heart acquired on LTQ Orbitrap XL, LTQ Orbitrap Velos and ABI QStar pulsar (in DDA and MPIS mode):File:Spectra article.zip

@@ Line 1: / Line 1: @@
-<strong>MediaWiki has been installed.</strong>
+{| align="right"
+| __NOTOC__
+|}
-Consult the [https://www.mediawiki.org/wiki/Special:MyLanguage/Help:Contents User's Guide] for information on using the wiki software.
+=='''LipidXplorer Wiki'''==
-== Getting started ==
+<div style="width:49%; float:left; margin-top: 5px">
-* [https://www.mediawiki.org/wiki/Special:MyLanguage/Manual:Configuration_settings Configuration settings list]
+<div id="grey">
-* [https://www.mediawiki.org/wiki/Special:MyLanguage/Manual:FAQ MediaWiki FAQ]
-* [https://lists.wikimedia.org/mailman/listinfo/mediawiki-announce MediaWiki release mailing list]
+=== [[LipidXNews|News]] ===
-* [https://www.mediawiki.org/wiki/Special:MyLanguage/Localisation#Translation_resources Localise MediaWiki for your language]
-* [https://www.mediawiki.org/wiki/Special:MyLanguage/Manual:Combating_spam Learn how to combat spam on your wiki]
+<div id="small">
+====2016-05-09 New release: LipidXplorer Version 1.2.7====
+The new version [http://sourceforge.net/projects/lipidxplorer/files/LipidXplorer-1.2.7.zip/download LipidXplorer v1.2.7] can now be downloaded. It includes some minor bug fixes and some speed improvements for MFQL lipid identification.
+</div>
+</div>
+<div id="grey">
+=== [[LipidXplorer Documentation|LipidXplorer Documentation]] ===
+=== [[MFQL library|MFQL library]] ===
+<!-- === [[FAQ|Frequently Asked Questions (FAQ)]] === -->
+=== [[FAQ|Troubleshooting]] ===
+=== [[LipidXMergingTool|LXMerge: A tool for merging multiple results]] ===
+<!-- === [https://git.mpi-cbg.de/mirandaa/MS_Bin_Filter/wikis/home MSPeakStrianer]=== -->
+<!-- === [[Help:Contents|How to edit the LipidXplorer wiki]] === -->
+</div>
+<div id="grey">
+===Get LipidXplorer===
+If you are on Windows you can try the [https://git.mpi-cbg.de/labShevchenko/LipidXplorer/wikis/Single_file_installer Single file installer for Windows]
+LipidXplorer is published under GPL and available here: [[http://sourceforge.net/projects/lipidxplorer/files/ LipidXplorer on Sourceforge]]. Check out [[LipidXplorer Installation | the LipidXplorer installation instructions]] for help.
+</div>
+<div id="grey">
+===Feature suggestions===
+LipidXplorer will be further developed all the time. If you have suggestions for useful features, please write to the LipidXplorer mailing list and we will post them here. We also will post a status report on the suggested features: [[LipidXplorer wishlist| the LipidXplorer wishlist]].
+</div>
+</div>
+<div style="width:49%; float:right; margin-top: 5px;">
+<div id="grey">
+===[[Articles_Using_LipidXplorer | LipidXplorer MFQL Bibliography ]]===
+<div id="small">
+[[LX Reference Yadav 2015 | Yadav S, Garner K, Georgiev P, Li M, Gomez-Espinosa E, Panda A, Mathre S, Okkenhaug H, Cockcroft S and Raghu P: '''RDGBα, a PI-PA transfer protein regulates G-protein coupled PtdIns(4,5)P2 signalling during Drosophila phototransduction''' ''JCS 2015 July'']]
+[[LX Reference Khaliullina 2015 | Khaliullina H, Bilgin M, Sampaio JL, Shevchenko A, Eaton S:'''Endocannabinoids are conserved inhibitors of the Hedgehog pathway''' ''PNAS 2015 Feb 2'']]
+[[LX Reference Hebbar 2014 | Hebbar S, Schulz W D, Sauer U and Schwudke D :'''Laser Capture Microdissection Coupled with On-Column Extraction LC-MSn Enables Lipidomics of Fluorescently Labeled Drosophila Neurons''' ''Anal. Chem. 2014 May 12, 86(11)'']]
+[[LX Reference Papan 2014 | Papan C, Penkov S, Herzog R, Thiele C, Kurzchalia T, Shevchenko A:'''Systematic screening for novel lipids by shotgun lipidomics.''' ''Anal. Chem. 2014 Jan 28, 86(5)'']]
+[[LX Reference Graessler 2013 | Gaessler J, Bornstein T D, Goel D, Bhalla V P, Lohmann T, Wolf T, Koch M, Qin Y, Licinio J, Wong M-L, Chavakis T, Xu A, Shevchenko A, Schuhmann K, Schwarz P E H, Patel A, Bornstein S R:'''Lipidomic profiling before and after Roux-en-Y gastric bypass in obese patients with diabetes''' ''The Pharmacogenomics Journal 2013 Dec 24'']]
+[[LX Reference Herzog 2013 | Herzog R, Schwudke D, Shevchenko A:'''UNIT 14.12 LipidXplorer: Software for Quantitative Shotgun Lipidomics Compatible with Multiple Mass Spectrometry Platforms''' ''Current Protocols in Bioinformatics 2013 Oct 15'']]
+</div>
+</div>
+<div id="grey">
+===Contact===
+For any '''questions''' and '''suggestions''' please put them on the [[http://groups.google.com/group/lipidxplorer-discussion-group LipidXplorer Google Group]]
+If you do not want to join google, please write us (mirandaa@mpi-cbg.de or herzog@mpi-cbg.de) an email and I'll add you to the group.
+If you want to contribute to the Wiki please write to mirandaa@mpi-cbg.de or herzog@mpi-cbg.de or also to the google group.
+</div>
+<div id="grey">
+===Known bugs===
+Please check out the [[http://groups.google.com/group/lipidxplorer-discussion-group LipidXplorer Google Group]] to be up-to-date on found bugs.
+</div>
+<div id="grey">
+===Bug reports===
+Please send Bug reports directly to mirandaa@mpi-cbg.de
+</div>
+<div id="grey">
+===Example spectra===
+=====Example spectra for the LipidXplorer tutorial=====
+* Spectra of E.coli acquired on the LTQ Orbitrap with different resolution settings:[[File:spectra_tutorial.zip]]
+=====All spectra used in the LipidXplorer article=====
+* Spectra of E.coli and bovine heart acquired on LTQ Orbitrap XL, LTQ Orbitrap Velos and ABI QStar pulsar (in DDA and MPIS mode):[[File:spectra_article.zip]]
+</div>
+</div>