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82
MS-DIAL / Re: Peak integration in MS-Dial
Last post by MatyashSupp -
Hello Sergei
Normally, in my case, I just manually integrate it to zero.
I dont know if there's some way to put some 0 baseline, maybe at the normalization... IDK.
83
MS-DIAL / Re: Peak integration in MS-Dial
Last post by fourkin -
Hi JMS,

sorry for late reply: when I have ambiguous identification I check my standard panel, which I run along with unknown samples. This gives me RT info. Also, if ms2 spectra was acquired, I check it against the database (mzCloud for instance). Hope this helps.

Thanks.
Sergei.
84
MS-DIAL / Re: SCIEX 5600 Qtof data (IDA mode) with MSDIAL
Last post by MatyashSupp -
Hello Mwang, I got the same Sciex but I'm doing Lipidomics instead. But I did some tests to understand how MS DIAL works and I have some issues when, first: MS DIAL just dissapear with the channels, with makes me question about the confidence of DIAL, and second: I could just use my datas in MS DIAL when it accepts the .wiff, it because when I use ABF, I lost many data infos.

 Did u already tried to use the recent versions of DIAL? Maybe it'll help.
85
MS-DIAL / number of features depends on spectral library
Last post by fran999 -
I am using two spectral libraries to annotate HPLC-MS DDA data, with the default MSDIAL parameters, and I see that the two resulting feature tables have a different number of features despite using the same spectral dataset as input.
The sample types (samples, QCs and blanks) were provided, and the option "Remove features based on blank information" was not checked.

Is there any way to avoid MSDIAL to filter features out? I would like to keep the same number of features to compare the annotations obtained with the 2 libraries.
86
MS-DIAL / Large TGs identification/ spectrum prediction
Last post by vso -
Hello,

I wasn't sure where to post this but since lipidblast is offered with MS-DIAL I'll try here.

Is there a way to predict ms/ms spectra for structures that are not currently covered by lipidblast (e.g. TGs > 80 carbon atoms with unsaturated acyl chains) in order to be able to identify very large lipids. E.g. I have ms/ms spectra for TGs with precursors >1300Da that cannot be identified by MS-Dial.

Thanks in advance
87
MS-DIAL / Re: Spectra extraction for database creation
Last post by berrytf -
I have a follow up MS-Finder question - how do you clear the cache or previous work when you want to start a new project or set of IDs. For some reason there isn't a 'clear all' button in the program nor can you select previous items to be cleared individually. It's rather confusing.
88
MS-DIAL / What's the difference between adduct under Identification tab and adduct tab?
Last post by JL -
Hi,

In the lipid database setting, there are two places that we could select adduct. One is under "Identification" tab,  where we choose lipid class and adduct type. Under "Adduct "tab, we could also choose adduct again. What's the difference between the adduct under "Identification" tab and "Adduct" tab?
Thanks!

JL
89
MS-DIAL / View Alignment Table
Last post by Ro_Nina -
Hello everyone,
I recently had some issues with MS-Dial crashing down a lot, so I reinstalled it. Now it workes a lot smoother, but somehow I can not open the alignment table viewer. It just shows the loading bar and nothing happens. I am working with MS-Dial version 4.9. Has anyone encountered the same issue?
Thanks for your help  :)
Ro_Nina
90
MS-DIAL / Re: Spectra extraction for database creation
Last post by Jude Leung -
Hi,

about the second question,  we have some questions. which collision energy (10 20 40ev) of the data import to MS dial? And now the software have been updated to version 5,  this version also uses only one of the MS/MS spectra assigned to a precursor peak? Are there any plans to consider providing new solutions, such as allowing collision energy selection, etc

Thanks