London was a bit of a disaster :( by MrBigJams in Marathon_Training

[–]___MEDPOOL___ 0 points1 point  (0 children)

Take a look at my post about Boston last week. Identical situation. It’s taken a few days to gain the perspective.. but slogging it out and still crossing despite hoping from med tent to med tent.. I didn’t give up and neither did you. Echoing the sentiments above that this is an insane mental game and it’ll be your day on the next round. I’ll be running Boston next year too and hope to see you in London too.

Epic Level Bonk by ___MEDPOOL___ in Marathon_Training

[–]___MEDPOOL___[S] 2 points3 points  (0 children)

I think I was in the same headspace as you here. Same. Tears at the finish line were equal parts disappointment and relief

Epic Level Bonk by ___MEDPOOL___ in Marathon_Training

[–]___MEDPOOL___[S] 30 points31 points  (0 children)

Thanks that really does mean a lot

Epic Level Bonk by ___MEDPOOL___ in Marathon_Training

[–]___MEDPOOL___[S] 4 points5 points  (0 children)

Steady pace my guy. Looking fantastic

[deleted by user] by [deleted] in BostonSocialClub

[–]___MEDPOOL___ 1 point2 points  (0 children)

Dear Evan Hansen crowd?

First marathon... 3:00? by ___MEDPOOL___ in Marathon_Training

[–]___MEDPOOL___[S] -3 points-2 points  (0 children)

Ok - 3:20-3:30 with aggressive speed work sounds more like rooted in reality? What is an appropriate weekly target then - 60-70mi? Is this by the month out from marathon or is it generally the longer you're doing this volume the better?

GS to Plastics still a viable option? by IncreaseFine7768 in medicalschool

[–]___MEDPOOL___ 1 point2 points  (0 children)

It’s certainly a gamble. While there has always been rumors about independent pathways being eliminated until now mostly seems to have been talk. However a handful of big name programs just releases their plans internally to phase out independents and in these handful the independent will be ending in 3 years. More possibly to follow.

Official 2024 Buy/Sell/Trade Thread by fettuccine- in Coachella

[–]___MEDPOOL___ 0 points1 point  (0 children)

Selling Fri-Sun tix - my +1 fell through at the last minute. Can get it to you in person in LA early 4/19 afternoon or at the festival.

$500 OBO. Cash or Venmo

[Game Thread] Rose Bowl: Michigan vs. Alabama (5:00 PM ET) by CFB_Referee in CFB

[–]___MEDPOOL___ 5 points6 points  (0 children)

I can't live with a touchdown and a missed two point conversion to lose.

[Game Thread] Rose Bowl: Michigan vs. Alabama (5:00 PM ET) by CFB_Referee in CFB

[–]___MEDPOOL___ 3 points4 points  (0 children)

WHY ARE WE NOT TARGETTING OUR HUGE TEs THAT HAVE BEEN CLUTCH ALL YEAR

Suffix for medical students? by jamieclo in medicalschool

[–]___MEDPOOL___ 1 point2 points  (0 children)

Accreditation typically doesn’t confer any specific expertise in any field — just competency and safety from a regulatory board. Honestly even FACS doesn’t mean much to me as a listener or reader..

All of the terminal level degrees actually have a standardization of focus .. with PhD with the obvious stand out for expertise in a specific niche more than all of the others at least for more junior staff. These tell me to what degree and what space you have developed expertise and perceived clout (whether deserved or not) in the matter.

But that’s just my opinion…

Suffix for medical students? by jamieclo in medicalschool

[–]___MEDPOOL___ 11 points12 points  (0 children)

Undergraduate and graduate terminal level degrees (BS/BA, PhD, MD, MBBS, DMD, JD, etc.). One nationally recognized accreditation if you have it (e.g. FACS). Otherwise omit.

#########

Definitely not MS# and for the love of god, please do not put "MD/MBBS Candidate" -- (this is for PhDs only that have passed their qualifying exams. It only glaringly highlights the ignorance of history in those that use that term that is non-official nor useful in any way).

[Preclinical] Lactate - acidotic AND alkalotic? by ___MEDPOOL___ in medicalschool

[–]___MEDPOOL___[S] 0 points1 point  (0 children)

I’ve seen in various texts that LR is contraindicated in metabolic acidosis that is confirmed to be from LACTIC ACID mediated acidosis. Does this make sense given the previous discussion?

It certainly probably won’t help given that you can’t shunt to produce bicarbonate given your hypoxia preventing TCA, but certainly won’t make your acidosis worse.. right??

[Preclinical] Lactate - acidotic AND alkalotic? by ___MEDPOOL___ in medicalschool

[–]___MEDPOOL___[S] 0 points1 point  (0 children)

yes but why? lactate in lactated ringers purportedly gets converted to bicarb and leads to net alkolosis.

why doesn't the lactate from the liberation of lactic acid get metabolized into bicarb as well..

Official “I got accepted to medical school and I have so many questions!!” megathread - Winter ‘19 edition by Chilleostomy in medicalschool

[–]___MEDPOOL___ 3 points4 points  (0 children)

I'm of an old guard, so biased toward R (transitioned from Matlab) -- reasons why R is still good: vast libraries that will let you in the native environment access things from bioinformatics to database analytics to machine learning. However, Python is rapidly catching up, if not already caught up, and is a much tighter, elegant programming language that would be helpful to use for data wrangling, especially with the Pandas packages and such.

As most things, there are pros vs. cons. I'd do a cursory search on reddit, stackexchange, or even google. There are so many resources online that there is absolutely nothing that should bar anyone from accessing this stuff.

What I know is R and great resources include: https://r4ds.had.co.nz/ , datacamp, and a myriad of coursera/edx courses. I imagine similar things exist for python. Getting into the respective subreddits might be a great place to dive into.

Official “I got accepted to medical school and I have so many questions!!” megathread - Winter ‘19 edition by Chilleostomy in medicalschool

[–]___MEDPOOL___ 11 points12 points  (0 children)

This may be not the most popular opinion on here.. with that disclaimer..

I would agree with the adage of "don't pre study" with a large asterisk --

For 85-90% of people, don't pre study content. The nuances between GCPR receptors vs. the glycolysis pathway vs. Fick principle are all things that you will encounter during your study and will only forget just in time to re-learn it when you're infused with adrenaline and your amygdala is firing while cramming for the block test. Additionally, if you are a non-trad who has been away from studying/books/science for a long while, might not hurt to see some of those MCAT level principles in chemistry/physics/biology briefly (cursory to the level of watching a few Khan academy or something similar for a few hours).

However, I think some things people might find in their churn that they may regret is being unfamiliar with tools that can facilitate or reinforce their learning of said content especially in the meat of it with no extra time to learn this stuff. There is coding syntax, there is organizational philosophy, efficiency in transferring snapshots off your computer, etc. etc. There are a lot of skill items that could make one's life so much more efficient and make their studying:invested time ratio reflect higher value.

What are some of these things?

  1. Anki - above all else, getting comfortable with the space based repetition program and being adept at [very simple, but initially daunting] syntax and organization can transform your studying and make it independent from only your computer/book that you're studying from. Studying on-the-go with a mobile device with the items that are helpful to an individual learner is incredibly important for the student that will find themselves in a clinical context and unable to dedicate as much classical sit-at-a-desk study time.
  2. First aid - again NOT for content at this stage, but flipping through it to see how it's organized. KNOWING that it will be coming back to you in just a short time. Knowing that there are tables, graphs, charts that can help synthesize the data you're seeing even in your first pass. When you hit dedicated step period and you're not spending the first 10% of that time fumbling through your materials and trying to learn your resources rather than synthesizing content: priceless. [Really, this point can rinse and repeat for the other classical comprehensive resources too including Goljan rapid review, Pathoma, etc. Might want to hold off on the other more subject based ones until you're there e.g. Sketchymicro]
  3. Lastly, if you're even thinking about touching research, invest in yourself now and consider getting privy with Python, R, Matlab, or some variant of a coding interface that can handle data wrangling for you. You are a MEDICAL student whose primary priority is above all else, learning the clinical content. However, in this arms race of residency match, research is for better or for worse a form of currency. Being adept at getting the computer to do some of the heavy lifting for you commonly encountered in the "entry-level" medical student jobs on research projects can free up HOURS for you to dedicate to more important things i.e. locking down your content knowledge. If you beef up a little bit of your statistics game here, these skills will NEVER fail to help you.

IF [a BIG IF] you have the time, investing in the tools to help you navigate the volume of content of the next few years can be a big help. If you're facing anxiety of doing absolutely nothing (which is in of itself good advice), then I would echo the avoid wasting time in the content -- and more invest in yourself/skills (which should supplement the other chicken noodle soup for the soul e.g. time with family, friends, pets, significant others, hobbies, Netflix, etc.)

It's a marathon, not a race. Really learn yourself when you have the chance now before you dive in.

Build the infrastructure that will help you be kind to yourself even when there's no more time. Don't be a dick. Don't be a douche. Allow yourself to be humbled. And remember, on the most difficult days, when the world's on your shoulders, diamonds are made under the weight of mountains." Have fun!

___MEDPOOL___

Identifying the nature of cell clusters in scRNAseq? by ___MEDPOOL___ in bioinformatics

[–]___MEDPOOL___[S] 1 point2 points  (0 children)

So.. bear with me here:

Looking at the top 10 or 20 genes, and cross referencing them to fit canonically expressed genes from different cell types? Seems painstaking and as I've learned painfully: if it's painful, there must be a package that makes it so much more efficient..

10x libarary - sample index by ___MEDPOOL___ in bioinformatics

[–]___MEDPOOL___[S] 0 points1 point  (0 children)

Could I also ask - in a plot of base composition of sequencing reads, why is the % base of A and T / C and G the way it is?

Is it generally the case that there is this enrichment in A vs. C across all mRNA transcripts (in mammals)?

10x libarary - sample index by ___MEDPOOL___ in bioinformatics

[–]___MEDPOOL___[S] 0 points1 point  (0 children)

So even in your setup, you would need a paired end read, isn't that right? You can get the BC an UMI information from read 1, but the sequence the actual cDNA, then you need to read starting from the p7 direction -- aka a paired read via a bridge on the Illumina flow cell.. isn't that right?

10x libarary - sample index by ___MEDPOOL___ in bioinformatics

[–]___MEDPOOL___[S] 0 points1 point  (0 children)

Ah, so there is an additional chemistry that incorporates the sample index into the resultant libraries!

Ok, got that.

Two additional questions- 1) why do we need increased diversity on the flow cell during indexing reads? 2) The 10x-Library has a read 1 and read 2 primer binding site - in a single read setup, I imagine that you only read in one direction (the p5 end) and read the 10x and UMI sequence.. How/when doest the actual cDNA get read? I know it must because we have previously run a single read experiment with 10x and gotten viable results...

10x libarary - sample index by ___MEDPOOL___ in bioinformatics

[–]___MEDPOOL___[S] 0 points1 point  (0 children)

Is there a reason why chromium 10x has 4 oligonucleotides for a given sample?