We're a little crazy, about science!

Posts tagged “science

Book chapter update

It feels like it’s been a while since we talked explicitly about the book chapter I am writing. A lot has happened since that first post, mostly edits and what not. Since the second round of edits was due yesterday (and I hit that goal, thank you!) it won’t hurt to do a bit of a refresh and remind everyone why I took on yet another thing on my long list of to-do tasks.

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End of the month crunch

It’s the end of the month and that means there are a lot of loose ends I need to tie up before the new month begins. Deadlines I need to hit, plots to make, projects due, heck I even have a book chapter due. There’s just a lot going on and not a lot of time to finish it all. It seems to be a common theme that things are “due” at the end of the month for me. This month is no different, but with school having started, it gets a little more hectic than normal.

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Experiment Results

It’s been a crazy week, more so than usual! The R21 grant I’m writing is due to my Co-PI today, it’s our self imposed deadline. It’s not THE deadline, but it might as well be in my mind. I’ve processed most of the data from the experiments and yesterday I said we would talk about the result from finding an error in my code. Well let’s talk about it!

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To code is divine, to err is human

Yesterday we had a problem. My data was not playing nice. It decided that I didn’t really have what I thought I should be seeing and that left me… anxious to say the least. Since this is all so new, one misstep could ruin everything. To make things worse, there was one of three choices and none of them were good news.

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The last experiment!

Today’s the day! It’s the last experiment for our R21 grant, we had our first set of experiments last week and today we’re completing the final experiment today. Hopefully we’ll have some good results for our grant, I got done processing some data last night and if I didn’t make an error the results were slightly underwhelming, but we’ll have to see I guess. There’s still a lot of things I need to check so I’m not too worried, okay slightly (very) worried…

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Overloading in education

Get your PhD they said! It will be worth it they said. You’ll have a good time they said! They certainly say a lot don’t they? Well I say things shouldn’t be so freaking hard. I get that getting your PhD requires work and frankly, it should require work, I mean it’s a freaking PhD! That said, it shouldn’t be a four to six year gauntlet of torture to see how many times you break down mentally and physically. It doesn’t build character, or better PhD’s, but it is the system we work in.

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Make a SciComm video, the hardest way possible!

Writing, and filming, and edits… OH MY! I’ve done it, I’ve committed to making this science communication video (SciComm for short, if anyone was wondering about the title). Yesterday I went into the lab to do some filming and realized that I was about to make a great video, or at least I like to think so. But more importantly I was going to do it the hardest and most convoluted way possible. Why? Well, why the heck not?

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A new science outreach project

Today we’re making a movie! Okay, it’s not a movie persay, it’s a virtual outreach project I’ve been tasked with by my main-PI. Unlike most outreach I do, this is going to take some planning, a bit of script writing, a easy to do exercise that can be followed at home, and lastly a little write up on everything going on. So when I say some planning, I mean a LOT of planning!

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Experiments update!

Yes the data always look like a bunch of random squiggles, that’s why it takes forever to make sense of it.

Well a lot has happened this week, maybe not the most interesting of things for my readers, but this week has definitely kept me on my toes. Today we’re going to have to talk in circles because I can’t give away my “super secret” technique I’m researching, but I also have news about that technique. It’s all very hush, hush, top secret, would have to kill you if I told you type stuff for now, but that doesn’t mean we can’t talk about how the experiments I’m doing went!

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Second grant experiment

Data processing…. now in parallel!

Ever have one of those days that is so packed full of stuff to do you don’t think you’ll get a chance to eat? Well today is one of those days for me, I’ll be busy from morning to evening today between my experiment and class I don’t get a break! Since that’s the case, I think we should look at what’s on the agenda for the day in a bit more detail and how I plan on managing my time so that (hopefully) I won’t be late for anything.

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More on grant writing

Got the first round of edits back from my Co-PI on the R21 grant I’m writing. At first they didn’t look too bad, but it turns out he reworded quite a bit. Not that big of a deal honestly, but he did suggest that it was close to perfect, so I would hate to see what “not close” looks like. Today I figure we can discuss what I have left, why there’s a rush to get all this done, and why the heck I’m doing soooooo much writing!

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More experiments!

*Cue mad scientist laugh* It’s alive!!! ALLLLIIIIVVVEEE!! No, I’m not reanimating corpses, I just work with human participants so if they weren’t alive it would be awkward. I mean really, really awkward. Thankfully since they are non-invasive experiments the risk of serious injury is almost zero. All this build up to say I’ve got some new experiments starting today, as in MY experiments! *Cue second mad scientist laugh*

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The first week of classes

When you start a PhD program, or a Masters program (I have a BS and MS so I can speak to this) things aren’t as structured as they are in undergrad. Not that undergrad programs aren’t hard or not hectic, it’s just that there are scheduled times for everything so you know when and where you will have work. It’s a lot like highschool in that respect, you get homework, but there’s a clear end to it. Not so much in grad school, your homework takes a year or even years (for a PhD) to finish. Still, it’s the first week of school, so things change, if only slightly.

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Everything you should know about the COVID vaccine

I’ve already written several posts on my experience with the first COVID vaccine dose (here and here) and the second dose (here and here). Today we’re putting it all together. I’m going to run through everything you should know about the COVID vaccine from how it works, to why you should get it, and what to expect when you go through the shots. My goal with this is to make it accessible as possible so you can make an informed decision and feel comfortable getting the shot. Sometimes the science is hard to understand, but I think we can simplify it enough to make sense to just about everyone. That said let’s give it… a shot.

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COVID Vaccine: The second shot update!

Well today is a full day since I had the second dose of my COVID vaccine. I promised honesty and transparency so here it is, the second dose isn’t as smooth as the first. So we’re going to go over why that is, what my issues have been, and why it’s still very much worth it.

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COVID Vaccine: The second shot

We’re talking spike proteins, the thing that gives COVID-19 its distinct look (red spikes).

Today is the day! It’s been roughly two weeks (if I’m counting that right) since I got my first COVID-19 vaccine shot and today I’m getting my booster, or second shot, whatever we’re calling it. For that reason, today we’re going to recap the last two weeks and discuss what may happen with the second shot. It’s not as exciting as it sounds, but there’s a lot of misinformation out there so it’s important to document all this.

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I’m going into surgery… sort of!

Okay well this came out of left field, or rather happened faster than I thought it would. My Co-PI and I had discussed just last week seeing some of how the more clinical stuff gets done in terms of electrophysiology and invasive monitoring. He suggested I shadow some of the doctors while they are performing surgery to see how they do the things they do and now I’m about to get the chance to do just that. Yeah, that’s a lot of doing.

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A day of meetings and emails

Okay, my inbox isn’t that bad, but if I didn’t keep up with it, it could easily get there.

It’s a new day with a new and long list of things I need to get done. I’ve already got a ton of bad news about my car issues and the rather large bill that is coming with that, but I’ve also got meeting after meeting scheduled for today on top of a long, long list of emails that need responses from me. Basically today is going to be exhausting and all I will have done is sit in front of a computer, how the hell does that even work?!

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First grant meeting

Time to put the fun in funding?

Well it’s been a weird couple of days and by weird I mean, WTF?! For that reason let’s shift slightly back into the school aspect of things. I had my first meeting with my Co-PI to discuss the grant writing I’m going to be doing and what we want to focus on. Turns out there’s a lot going on and not all of it had to do with the grant, but it was a good meeting and I’m excited to get started.

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New year, new grant

It’s all connected somehow… I just know it.

Nope, still on vacation… I tell myself as I make arrangements to meet with my Co-PI. This is important though and unlike some of the other projects it has a firm deadline. That’s right, I’m writing a grant. No this isn’t an update to the last one I wrote, this is a whole new one. How did I end up in this position? Who knows, but I’ve been trying to figure it out since it happened. Let’s discuss, shall we?

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I’m getting my COVID vaccine today!

Today is the day! About a week ago I got an email letting me know that I could be vaccinated. While I’m a researcher in a hospital, my work involves a high risk population (people with spinal cord injury) so I’m front facing with patients on a regular basis. I’m also disabled which may have factored into my group placement. Whatever the case, I got a spot in line and now it’s my turn. My Co-PI who’s lab I work out of already got his, but he was in a higher group than I was. As usual I have some thoughts on all this…

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The perils of publishing

So you want to publish some science. I don’t blame you, as a scientist we’re driven by the “publish or perish” mindset. The further along you get the more you’re stuck having weird nightmares about h-index and impact factor. Or maybe that’s just me, who knows? In any case, any publication is a labor of love, one that typically turns into a labor of spite. Because publishing isn’t easy, or maybe that’s just me.

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Outreach

I just finished with my Skype a Scientist session! You can do it too if you want, just sign up. I had a lot of fun and while today was going to be on a slightly more depressing topic, I figure we can talk about how it went instead. I love doing outreach, it’s probably one of my favorite things about being a scientist and I got to show a whole bunch of interesting things I get to do as a scientist. This was an interesting group, so that’s also a good reason to talk about it.

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Please, stay home for the holidays!

Don’t do it. Seriously, why are we having this discussion right now? It makes no sense, there is a pandemic going on and if you live specifically in the US (which I do) you’re going to need to stay home. Sure the holidays can be an important time of year for families, but do we really need a holiday to celebrate with our family? Why not wait until this is over? More importantly is it worth putting all of them, yourself, and the people you come in contact with at risk?

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And finally something good…

I don’t know why my mind went with hidden treasure, but that’s what we’re going with today.

It was bound to happen eventually, some good news for today! I had a meeting with my Co-PI and we went over the latest findings in the dataset I’m processing for my “super secret” technique and I have to say it went much better than was expected! He’s excited, I’m excited, we’re excited. The issue is we don’t know what any of it means, but I think that’s why it’s so exciting!!!!

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Outreach in a pandemic

I’ve been matched! No, not with a dating service, with an outreach program called Skype a Scientist. If you are a scientist (any type will do) you can get involved too! I’ve talked about some of my outreach activities in the past, but heck let’s run through why I think outreach is so awesome and how the pandemic has actually made it easier to do!

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A change in my timing

The meeting with my PI is done and it’s not all bad news. It went better than expected in some aspects and not so great in others. That’s how these things work out, it’s not a linear progression, it’s a lot of going back and forth and sometimes side to side too. Thankfully we met before I made any firm plans! Anywho, let’s just dive in and talk about what happened.

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More data, more problems

Maybe the title should be no data, no cry. Anyway here we are another day and there’s a lot going on, but I finally did it! I got some results from my new dataset that I hadn’t had a chance to process yet. And would you believe (despite the title) that I found something!? Yep, which is great news… except there’s more I need to do! My Co-PI who likes to temper my excitement when I come to him with results has reminded me that I should wait to celebrate until the rest of the data are analyzed.

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A meeting with my PI

It’s a treacherous path, but one I need to take

Well I may have overestimated how fast I could get the data processed from yesterday. I have it basically done, but I was up until almost 2am getting it to that point and I didn’t have the energy to start the analysis so that’s going to happen today. Instead of sharing my excitement for a second day in a row I thought I would share some news. I got an email back from my PI and tomorrow we are meeting.

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An early present

Since my deadline has come and gone I can look around for a moment, but more importantly I don’t feel the pressure to hyperfocus on a single project. So today instead of working on that dataset I’m switching to a dataset I need to get done before my PhD proposal defense. It’s data that will (assuming I find something) further help make my case for studying my new “super secret” technique for the next 2-3 years depending on how long everything takes.

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A mental health day

Today the fatigue of the past few weeks has finally caught up to me. With the adrenaline rush that came to a head from the presentation I did yesterday wearing off, I feel exhausted. So today I am taking some time to recharge and rethink what the next few months will look like. This is me taking a mental health day, but let’s talk about the events leading up to today and what the plan is, at least for today.

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How to fail giving a presentation

Today is the big day! The day where I showcase the stuff I’ve done. It’s a bit anticlimactic to be honest because I haven’t had time to do a full analysis, just a very general overview. It was COVID you see, we shut down for a few months there so I didn’t get any data collected. When we finally got started again I had weeks to do the analysis, not months. Needless to say it’s not good.

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The science behind an MRI

Today I had an MRI, don’t worry it was for research purposes. It wasn’t a short MRI either, I was in the bore for almost two hours. Yep, stuck in a tube with nothing but my thoughts, some music, and the sounds of the MRI machine doing its thing. I figure we can discuss what an MRI is, why I had one, and why I don’t mind that it took so long. I may even show off some of the scans, but not today I don’t have them yet.

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The art of coding

Well I did it. I got all the code written for the next two (of three) steps for processing my data. I can’t do the third until the second step is done for at least one dataset, but I’m almost there and the last bit of code is to visualize the data, which is substantially easier. So let’s talk about what I did and why I won’t have to do it again now.

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(Un)motivated

My deadline is fast approaching and I still have a lot of work to do. I’m also struggling with feeling super unmotivated. Normally when this hits I take a day or two to relax and then I’m ready to go. Unfortunately with my deadline approaching I need to use a different technique to get through what I need without driving myself crazy(er).

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A look ahead

Okay the next month or so is going to be busy. Complete and utter chaos levels of things to get done. So today instead of complaining about the data I have to process (since I already did that yesterday!) I figure we can look forward. I have some exciting things happening so might as well give you all a sneak peek at upcoming events.

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Back to EEG processing…

It’s the day after thanksgiving and I made my annual I don’t want to have to cook for the next week or two spread of tasty foods. I don’t do the traditional Thanksgiving foods though, I prefer Mexican dishes (since I’m Mexican). Namely I make a huge batch of tamales, since they are a bit of work I tend to make a comically large amount, think 100 or more. So while I have food to last, I need to get back to my main focus and that’s work!

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EEG Cleaning: ICA and Dipoles

This is (a very, very, small portion) of the data I’m working with for this post!

Let it be known that I’m a person of my word and today we’re going to give a rather broad overview of ICA and dipoles. Don’t know what those words mean? Well start here and that will give you a high level view of the entire process. Today we’re going to do a slightly deeper dive into what the heck a dipole is, why we use it for ICA and why ICA is so helpful in EEG data processing. Sound like a lot? Well it is, but let’s take a crack at it anyway!

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That time I angered my PI

king's roads from Jonathan Strange and Mr. Norell
Navigating the right path isn’t always so easy.

I met my deadline, so now I’m going to take a short(ish) break and tell a quick story. I have been debating about telling it since it’s embarrassing and talking about failures (or really mistakes) is uncomfortable. I had enough uncomfortableness just trying to hit my deadline, but now that I’ve made it I figure I can at least tell the story for posterity’s sake.

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The due data

It’s time, my data and the results from the experiment are due today. Okay, if we want to get technical the due date is tomorrow. HOWEVER, and that’s a big however, I need to get it to my PI today to review before I submit it. Which means he needs to see it today so I can send it off to the center for review.

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Computer rebuild

Okay, lots of work and not a lot of time to do it in, but today I thought I would show off the internals of my computer since I had to swap out the watercooler for one that wasn’t garbage. This is a follow up to this post, so with the background out of the way, let’s go!

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Time to work

So this post is coming a lot later than I would normally do this, but it’s been a day (already) and it’s going to get busier. I’ve had one experiment, one class, and now I need to repair my computer so I can perform the analysis of the data I have to get done before Thursday. Fun times ahead!

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Computer troubles

It’s my baby! The case is unique, but I wanted something that could grow with my needs and this case is not just fun to look at, it’s huge! Unfortunately that makes the computer super heavy.

I had a feeling this may happen, I just didn’t expect it to happen when I was so against the wire to get this project done. I’m having computer troubles. Not my laptop thankfully, but my desktop computer is feeling a little… warm. I’ll explain and then get into what I’m doing to fix it, so today let’s talk about my computer!

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A race to the deadline

Yet another day closer to my deadline for this EEG project and I’m still trying to pre-process my data so that I can make sense of it. We’re racing the clock here and my PI is pushing me to get it done, sure I think I can do it, but then again… maybe not?

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EEG, not quite mind reading

Still one of the best photos showing how we set up EEG, that syringe has a blunt tipped needle and we use it to apply gel to the scalp. Don’t worry, we don’t break the skin, so it just looks scary, but it’s really safe.

Well I’m behind schedule and even though I was given an extra week (6 days now) I don’t know that I’m going to meet my deadline. It’s not me, it’s my computer, things take time to run so I’m stuck waiting for it to do its thing. Today let’s talk about what EEG is and how we make sense of it.

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Remember, Trump is just a symptom

Well we may have actually done it. It’s been days and while we are still (STILL) waiting the final count, things are looking good at the moment. That doesn’t mean it won’t be a rocky several months or that the victory is assured. It also doesn’t mean that there isn’t a lot of work to do.

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Out of my hands

November 2nd at 11:59 pm. That’s the deadline for this years NDSEG application. Which means that today is the last day for me to get my application materials ready, double check that I have all the boxes ticked, and that my references did their part (they did). Then we play the waiting game.

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On anxiety

If you’re finding yourself in the high anxiety club, welcome! I’ve been a member since well before the pandemic. I’m sorry, but I’ve got some bad news for you. We are constantly being bombarded with reasons why we should be highly efficient and constantly producing something. That’s how we end up with articles claiming that we can turn anxiety into a super power. Which are complete garbage and are written by people who’ve obviously never lived with chronic anxiety.

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NDSEG Fellowship Tips

I might as well talk about it, this will be my second time applying for NDSEG, so today we’ll go over exactly what that is, why I’m doing it, and why, if you’re working on a PhD, you may want to do it as well. NDSEG is tricky, but if you get it then you should be pretty well set for funding, it’s a great program, but it also means you’re being funded via the DOD.

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The Dissertation Committee

Well it’s been a journey… but every person I emailed has responded and they all agreed to be part of my committee. That’s right, we’re making serious progress on the road to my dissertation proposal. It’s been a little surreal and I’m nervous that even though I’m here I’m not quite ready for it. Today, let’s talk about my next steps and what forming my committee actually means.

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