Search found 30 matches

by RaulCatena
Wed Aug 07, 2019 4:48 pm
Forum: Publications & Resources
Topic: Ruthenium Counterstain
Replies: 3
Views: 1637

Re: Ruthenium Counterstain

In deed is as you say. We describe aliquoting of Ruthenium in glass vials in a previous manuscript where we used RuO4 for a different purpose (https://onlinelibrary.wiley.com/doi/full/10.1002/cyto.a.22848). We should have, in fact, described this in the counterstaining article. Thanks for the heads-...
by RaulCatena
Fri Aug 02, 2019 2:58 pm
Forum: General
Topic: length of time after sectioning
Replies: 2
Views: 188

Re: length of time after sectioning

Precisely today, I posted this to a similar question
viewtopic.php?f=3&t=1434

Cheers
by RaulCatena
Fri Aug 02, 2019 8:12 am
Forum: Reagents
Topic: age of FFPE sections
Replies: 1
Views: 104

Re: age of FFPE sections

The fresher the better. The oxygen oxidizes the tissue from the moment you get the cut.

For very important tissues (TMA cuts etc) what it is done sometimes is covering with a millimeter of paraffin. I have seen also sealing in nitrogen bags.
by RaulCatena
Fri Aug 02, 2019 8:10 am
Forum: Reagents
Topic: Counterstain on mouse tissue
Replies: 1
Views: 89

Re: Counterstain on mouse tissue

I highly recommend RuO4,
It is easy and fast and we know that people from other labs have adopted it without problems.

Best regards,
by RaulCatena
Fri Aug 02, 2019 7:56 am
Forum: Data analysis
Topic: HistoCAT++ crashing when trying to filter
Replies: 1
Views: 96

Re: HistoCAT++ crashing when trying to filter

Good timing. Just identified a few bugs in the last release. Most of them have been fixed and you can download the latest version at http://www.bodenmillerlab.org/histoCAT_downloads/histoCAT++.zip Please reply here whether this is fixing the issue for now. I'll keep you posted as yet more stable ver...
by RaulCatena
Mon Mar 04, 2019 10:43 pm
Forum: Reagents
Topic: H&E and IMC staining
Replies: 1
Views: 905

Re: H&E and IMC staining

Hi Matt, Unfortunately, I did that test and it seems that H/E affects strongly antibody signal as the acid pH of H and basic pH of E strip antibodies from their targets. This was by performing the staining after antibody incubations, did never tried to pre-stain with H/E, although probably not a goo...
by RaulCatena
Wed Aug 08, 2018 2:55 pm
Forum: Data analysis
Topic: Histocat++ for windows?
Replies: 1
Views: 980

Re: Histocat++ for windows?

Dear steve, The site is this: http://www.bodenmillerlab.com/research-2/histocal-2/ I paste here the direct link too http://www.bodenmillerlab.org/histoCAT_downloads/histoCAT++.zip Unfortunately, there is no Windows version. That's were MCDViewer and histoCAT++ complement each other. Good news is tha...
by RaulCatena
Wed Aug 08, 2018 2:51 pm
Forum: Data analysis
Topic: Data Plots
Replies: 3
Views: 1201

Re: Data Plots

Hi Scott,

Please contact me at raulcatena@gmail.com and let's try to quickly troubleshoot this offline the forum.

Regards,

Raúl
by RaulCatena
Mon Aug 06, 2018 10:41 am
Forum: Data analysis
Topic: Data Plots
Replies: 3
Views: 1201

Re: Data Plots

Hi Scott, The functions are not well documented yet. Again, it will all be explained in detail in the upcoming manual. Meanwhile, let me just give you a pointer on how it basically works. Double click on the channels that you are interested. The rows will become orange. Double click to remove them f...
by RaulCatena
Tue Jul 17, 2018 9:46 pm
Forum: Data analysis
Topic: Imctools
Replies: 15
Views: 5465

Re: Imctools

h++ has two procedures. A) A watershed with a few tricks B) Pixel classification in a similar way to what Ilastik does. A is simpler but inferior, so for optimal results, Vito's approach is best. That being said, when you go down the road of pixel classification, the quality depends on the ground tr...