Jeffrey Gagan MD, PhD

Molecular Pathologist at UTSouthwestern. I get into lots of arguments about large language models and medicine. @MedicineUVA @BWHPath @UTSW_Pathology

[Jeffrey Gagan MD, PhD @grumpymdphd]

@NCIKenAldape LCH

[Illumina Live Events @illuminaLive]

In this upcoming webinar, Dr. Annapurna Saksena of the University of Pennsylvania, will discuss the relationships
of methylation-defined groups to a variety of HL tumor types to determine the feasibility of methylation
as a diagnostic modality. Register now.

[Jeffrey Gagan MD, PhD @grumpymdphd]

@NCIKenAldape Subependymal giant cell astrocytoma with TSC1/2 mutation?

[Jeffrey Gagan MD, PhD @grumpymdphd]

@sanamloghavi Not disagreeing with you in the slightest, but I pay for a password manager that lets me tag my various editoral manager logins with the journal name. It's worth every penny.

[Jeffrey Gagan MD, PhD @grumpymdphd]

I just had a cashier tell me “Stay safe out there” and she was referring to driving when the Texas-Oklahoma football game ends.

[Jeffrey Gagan MD, PhD @grumpymdphd]

@jim_bo_ Don't be fooled by the framing, we were not out in the middle of the woods. Most of the animals I came across had a surprising tolerance for humans.

[Jeffrey Gagan MD, PhD @grumpymdphd]

I just got back from a nature photography workshop in Jackson Hole. It was a great experience, and the primary lesson for me is that always being the expert in the room is unhealthy. Find situations where you are at the bottom of the learning curve and push yourself up it.

[Jeffrey Gagan MD, PhD @grumpymdphd]

@emilygironda @BLACKPINK You monster

[Jeffrey Gagan MD, PhD @grumpymdphd]

Happy birthday to my amazing wife @emilygironda. Spending my life with someone who wants to go a K pop concert one week and then the opera the next has been amazing. I can't wait to see what new adventures and rabbit holes we find ourselves down in the future.

[Jeffrey Gagan MD, PhD @grumpymdphd]

@emilygironda I didn't mention the group or my favorite member, so I think we're safe.

[Jeffrey Gagan MD, PhD @grumpymdphd]

To anyone thinking of reminding me, I promise I know when the USCAP submission deadline is. It's circled on my calendar every year.

[Jeffrey Gagan MD, PhD @grumpymdphd]

Both exons have a "G" in the exon-intron boundary position, so it's ambiguous to the mapper where it belongs when deleted. So look at the first image again. The G>A variant destroys the normal splice site, but creates a new one just shifted 1bp, creating a frameshift mutation.

[Jeffrey Gagan MD, PhD @grumpymdphd]

Splice variant analysis time: Variant in the -1 site, first thing to check is whether the VAFs in the DNA and RNA are equivalent. In this case they are.

[Jeffrey Gagan MD, PhD @grumpymdphd]

There are a bunch of reads where the splice donor site is moved 1bp into the exon.

[Jeffrey Gagan MD, PhD @grumpymdphd]

Don't procrastinate on getting your hotel either. Speaking from experience on this one!

[Association for Molecular Pathology @AMPath]

Registration for #AMPath23 is OPEN! Join your colleagues in stunning Salt Lake City, UT for three days of exciting #molpath programming. Early Bird registration ends September 20: https://t.co/6jUcOxIkid #pathtwitter

[Jeffrey Gagan MD, PhD @grumpymdphd]

@DrJPLow @DrCycloPath @NCIKenAldape I think the "GAP" is a double play on HGAP with an NF1 mutation. NF1 is a GTPase activating protein (GAP).

[Jeffrey Gagan MD, PhD @grumpymdphd]

This is BS

[Jeffrey Gagan MD, PhD @grumpymdphd]

@pde158 @BMJOncology I don't want to get into specifics, but cancer screening is a much more nuanced topic than even many physicians appreciate. We will never have something as good as a pap test for every cancer. I recommend reading this book for background. https://t.co/1a1cCxHH9j

[Jeffrey Gagan MD, PhD @grumpymdphd]

@pde158 @BMJOncology No, the article is saying that MRI found serious disease in men with normal PSA levels.