We're a little crazy, about science!

Posts tagged “research

Work goals

Today is going to be quite busy between OR experiments and all the other stuff I have going on (writing, data processing, etc.). One of those other things is something I thought would be easier than it’s turning out to be and so I figured I would talk about it today. I work in a teaching hospital and specifically I do research in lab that does human experiments. I really love it and I’ve talked about all that before, but now we’re discussing what my goals are for my employment and it isn’t as straightforward as I expected.

(more…)

The robot paper response

Yesterday due partly to the house work I was having done, I got none of the data processed I needed to do, but I had a chance to address some of the comments I got from the reviewers on “robot paper.” The response is due in just a few days and one reviewer was very thorough with their feedback, so there’s a lot to address and not a lot of time to get it done. The good news is ~94% of the comments are addressed, the only bad news is that it isn’t 100%.

(more…)

The IRB response

That was fast. I wasn’t expecting to hear anything back from the IRB so quickly, but here we are and I have a bit of work to do. Technically we didn’t get the IRB reviewed yet, it’s only been “pre-reviewed,” but pre-review helps speed things up when the IRB meet next (in about a month) to look over the application. Since we were asked to make some modifications, this should help bring our IRB application up to standard before the IRB actually review it.

(more…)

The dissertation proposal timeline

Now we wait… There’s a lot of things up in the air at the moment, but right now school-PI is reviewing my proposed plan for my dissertation and the timeline I gave to get it all done. There’s a lot of “ifs” involved with this and I’m not sure what constitutes as “enough” for a PhD. Thankfully I know the funding I was awarded is more than I need to do so I have an extreme upper limit to the work (or what I hope is an extreme upper limit).

(more…)

Chaos as enjoyment

Well today’s post comes far later than I would’ve liked, but hey it’s been a day. What kind of day? Well surprise, surprise I cannot talk about it! That’s the theme, I get to hint at stuff for a year or so and then surprise everyone with the paper after the fact. But today did inspire something that I can talk about and that’s why today we’re talking about why I love research so much!

(more…)

Back to back OR experiments

I’ve had one other instance where we had two OR experiments in a single day and that was exhausting. Thankfully we had a break in the middle so that I could get everything cleaned and prepped for the next time. Unfortunately I’ve just been made aware that next week we get to try things on hard mode next week.

(more…)

Back in the OR

Oh man, I haven’t been in the OR since last year! Okay we’re only a few days into the new year, but it does feel like it’s been a bit with the holidays. That’s going to change though because tomorrow is our first OR experiment of the year. And with the new year, we have some new changes to the experiment that we’ll be trying since we’ve had over a half dozen attempts to do this right with somewhat mixed success.

(more…)

Another new project!

When I think of science, for some reason exploration comes to mind. Hence the picture for today.

In the spirit of making things as hard as I possibly can for myself I’ve gotten a new project to work on from hospital-PI. This was a known thing, but it does (mildly) clash with the idea I recently had. Since I cannot share the idea I had, we can instead talk about this project a bit and why the two will be at odds. I also have a fun update on the big idea project I came up with so I’m shoehorning it in with this post since it’s semi-related.

(more…)

Breadth of knowledge, or the things they don’t teach you

As of yesterday I’ve started turning my latest idea into a reality. While I was working I realized that I have a large skillset and most of it wasn’t obtained through the traditional school route, but almost all of it has helped me become a better student and researcher. While there are plenty of things I wish the school required for a researcher, for those of you starting out it’s not too late to think about what seemingly disconnected fields may help you do your science better.

(more…)

Real-time seizure state tracking

Since I shared one of the papers I was super proud of, I figure I can share the other one as well. Like the last paper (here) I’ll explain the concept and why this paper was important. I’ll also talk about why I think it was cool and where the idea came from. Mostly this post is for people who are interested in the work, but may not be familiar with the technical aspects so I’ll try to avoid technical terms or I will provide an explanation when needed.

(more…)

The first steps to my proposal

I said this year was going to be a ride and I meant it. We’re four days into the new year and I’ve just heard back from school-PI that I’m good to submit my IRB. Since that may sound like gibberish to the non-academic and because I like to make things accessible, today I’ll explain what an IRB is, why it’s important, and why having one is somewhere between a small step and a giant leap to my PhD.

(more…)

Goals for 2022

Last year I did a post like this and I figure it was fun, so I’m going to try yet again to predict what this year will look like for me. Sure, they are the things I would like to happen, but as I found out last year what I think will happen and what does happen, are two different things. So the plan is simple, list a few things I want to get done this year and why, then laugh next year as I either fail miserably, go off on some new and seemingly unrelated tangent, or do far more than I imagined. It will be an interesting year no matter what the outcome though.

(more…)

2021 in review

Last year I did “a year in review” and yesterday, feeling a bit curious on seeing what I had accomplished the year before last (2020), I went back and read it. Obviously the last year has been… interesting to say the least. We’ve collectively been through some shit, but that doesn’t mean nothing good happened so for a moment at least I want to catalog some of the good stuff that happened last year. So next year, I can do the same look back and see what my goals were and what was actually accomplished.

(more…)

New year, new experiments

We are an alarming number of days away from the new year. Where did this year go? Why did it suck so bad? Why was this possibly the best year we will see in our lifetimes? Why am I asking so many damned questions? Am I having an existential crisis now that the year is coming to an end? That was a legit question and not part of the running gag. I’m a man who likes his plans, so let’s look at what (I hope) is instore for next year.

(more…)

Another OR experiment

Time to dust off my scrubs, it’s back to work for me. In fact, I have been so busy with other things I don’t think I mentioned it, but today is yet another OR experiment. With how well the previous two went, I’m hopeful that this one will go well, but a somewhat alarming email from hospital-PI yesterday may throw a wrench into any plans I had.

(more…)

OR experiments, the aftermath

The good news is we have data! Lots of data, more data than you could shake a stick at, although I don’t know why you would shake a stick at anything… That’s beside the point(ed stick) though! Yesterday was not one, but two OR experiments and I have to say surgeon-PI must be in way better shape than he appears because both hospital-PI and I are exhausted!

(more…)

Interrogation of spinal networks during movement preparation using transcutaneous spinal stimulation

Rundown of the experiment (A) shows where we stimulated and what muscles we recorded from. (B) is our experimental protocol that we used. We had an auditory cue, a tactile cue (a small electrical stimulation of the foot, which causes a slight tickle) and an isometric contraction task. (C) has examples of what the evoked potentials look like and it can be hard to read at first, but the far right has a very clear example (R1 is our first stimulus and R2 is the second). I don’t go into why we used 2 pulses, but there is a reason, it’s just a bit technical so outside the scope of this general review.

That’s not the name of the paper, but that’s the general idea. We tend to take movement for granted, I mean most of the time we do it without thinking. I don’t look down as I’m typing these words, yet my fingers know what to do to make it happen. Similarly, we don’t really think about balancing ourselves when we walk, we just do it. So if I’m not consciously thinking about every step I take when I walk down the street, who, or what is keeping me going?

(more…)

Yet another rush…

It’s a familiar story by now. Tomorrow is not one, but two experiments in the OR. In fact, I’m going to be so busy tomorrow that I’m probably going to write tomorrow’s post today. The good (or at least interesting) news there is that I have a good topic lined up for tomorrow since it just happened to fall in my lap. But for today, well let’s just say there’s not a whole lot of time.

(more…)

Double OR experiments!

It’s official, I just got not one, but two new participants for our study. This will be happening next week and the scary part is they are both on the same day, so it will be more than a full day in the OR, like 12 hours or so for the whole day. Not all of that time will be spent in the OR, thankfully. Every attempt we’ve had thus far in the OR has gotten better and better, so if the pattern holds, we should have some very good data after this next round of participants and I will have more data than I know what to do with.

(more…)

Success! Journal paper 2 of 4

Well kids, Christmas has come early! As of this morning my second of four journal papers I’ve written has been accepted for publication! Since it’s been a somewhat long and confusing road, I figure today I can remind everyone why I’m so thrilled about this paper and why this is good news for me in particular. There’s still a lot to do and more papers to publish as we go, but things are looking up!

(more…)

The fifth OR experiment

Well we did it. I finally have the first (mostly) complete dataset from a patient. Overall I think it went well and we got good data. Mistakes were made! But thankfully none of them derailed the project and overall I am happy with the outcome. Let’s get into what went wrong and what went right, because having some post surgical notes will help me next time we do our thing.

(more…)

Prepping for the experiment

Today’s the day, experiment number five. With lot of luck this will be the first full experiment we do for this protocol. It will hopefully mark a turning point for us since after four attempts we’ve yet to get a full dataset. However, I’m hopeful, but I’m also going in alone today.

(more…)

Solo OR experiment

Tomorrow will mark attempt number six to get the data we’re after from the OR. We’ve got a very unwieldy experiment to do which involves coordinating with the surgeon, but also the staff to make sure we don’t run into each other. It’s a delicate dance and if you haven’t been following along, it hasn’t been great so far.

(more…)

A big idea…

You ever have an idea that you just KNEW would change the way you were doing things. Like the first person to invent a surgical robot, it was just a good idea and it completely changed the way things were done. I don’t think that this idea is going to change things that dramatically, but much like my super secret technique, I think my recent revelation is going to mean some great things for me. Lighting struck the other day and it has hospital-PI incredibly excited.

(more…)

Fun with collaborators!

So much has been going on that I can’t even keep up with it. I was debating about what news to share, but I think we’ll talk about something I’ve had in the works for awhile now. Actually I just checked my email exchanges, this has been in the works for over a year and today we finally crossed the threshold from hypothetical to real world data collection!

(more…)

Update from the OR

I don’t share actual surgery photos online (even if I could, I don’t know that I would), but there are plenty stock photos, like this one!

No, I’m not updating this while I’m in the OR, but we had OR attempt number five as a maybe today and I have good news. We managed to get a yes at the last minute and got some interesting data. It’s all very exciting, so now I need to dig around and see what we found. For sake of remembering, let’s run through how today went!

(more…)

Another OR experiment… maybe

I got a random email yesterday from hospital-PI that I didn’t understand and I’m still trying to figure out what’s going on, but it looks like experiment number five may be happening as early as Monday! It will be an early morning and a long day, but it will be worth it, assuming it happens. Like everything in my life at the moment, we’re not 100% sure that we will be able to attend.

(more…)

The BIG meeting

I am a simple man. I keep my life as simple as possible because some days I can barely get out of bed. Breakfast and lunch have been the same things for years and I’m okay with that, in fact dare I say, I look forward to it? I keep my hair cut short so I don’t have to even think about it and besides the things I need like money to live, I don’t go out of my way to complicate things. Aside from my education and the things related, I have very little that I NEED to do, so I can focus on surviving the day. It’s a good system.

(more…)

To catch an error

Well it’s been an adventure! First we collected some one of a kind OR data, then because of technical difficulties couldn’t get it to open. The support team for the software has been amazingly responsive and we were able to recover the file! Or so we thought, saving the file caused the error to reoccur, so we needed more help. Thankfully because we could open the file, I could debug and now I look like a data wizard. So this is the story of how I attacked and dethroned the data gods.

(more…)

The last experiment

Goodbyes are hard, even if you don’t really know someone outside of work. Today we’re saying goodbye to a few of our participants as they finish one of our longer experiments. It feels like only yesterday, but it’s been several months now so it’s time to wrap things up. The good news is this will create a bit of an opening in my routine, but that’s probably going to be filled in pretty quickly.

(more…)

Dear data gods

We have offered our typical sacrifice of blood, sweat, and some might even say excessive amounts of tears. Yet clearly we have offended you and we are not sure how or why. We ask that you forgive our ignorance and help us understand how we can fix this. We are humbled and sorry, we should not seek higher truths, yet we must continue.

(more…)

Mad dash to the OR

Today has been a day! The trick with doing research in the OR is that the schedule for the surgeries don’t get finalized until the day before and sometimes even then things change at the last minute. I’m not sure when the schedule was finalized or if anything changed, but this morning I got a text that threw everything out of order. The best laid plans of mice and men…

(more…)

The fourth OR experiment

It’s official! We have experiment number four coming in two days. I’m excited about another attempt to collect data and to answer about a dozen interesting questions since we just keep tacking on stuff to look at when we go in. I’m not even joking, the experiment list keeps growing because the opportunity is unique and they don’t add significant amounts of time to the main experiment we’re doing.

(more…)

Sometimes things get cancelled

Today was a big day. We got the equipment ready, the patient consented, and everyone on the clinical side of things was on the same page we were on. Things were going well. Surprisingly well in fact, that should’ve been the first sign something was going to go wrong. This time it wasn’t our fault though! Sometimes you just can’t catch a break, so maybe next time.

(more…)

Off to the OR!

Tomorrow is the big day, our second experiment and while I’m a little nervous, I’m also excited to see what we can do. Last time around we had some issues… okay a lot of issues, but that’s because it was the first time we’ve ever tried something like this. This time around we worked with the team that will be in the OR with us so we know what they are doing and this time they know what we are doing. Basically we’re aiming for a whole lot less drama and a whole lot more useable data, meaning any usable data!

(more…)

Experiments from the OR

The last place you would expect to see me doing non-invasive research would be the operating room. Surgery, even the minor stuff, can be very invasive, but that doesn’t mean we can’t collaborate and combine our techniques. Of course this is the first time anyone in the hospital has tried to collaborate like this (that we know of anyway) so there’s bound to be some growing pains. Luckily we’re about to go into our second real attempt at this and I think we’ve worked out all the problems.

(more…)

The road to nowhere

Get it in writing. It was the advice I gave hospital-PI when he told me he got an offer from another hospital. Get it in writing. It was a phrase drilled into me by the military where less than honest recruiters would promise one thing, but deliver something else. I learned early on that your word is worthless, opinions change, memories fade, and you’re left with people who are upset because neither no one thought to write it down so everyone would be on the same page. Some lessons are learned the hard way I guess.

(more…)

The (maybe) final paper revisions

Okay, if I wasn’t stressed enough I got an email from hospital-PI forwarding to me the request for our manuscript. The one that I’m currently working on, as in right now. In fact, I’ve stepped away to write this because I really need a break from all that for a moment before I try to wrap it up. There have been so many changes I need to make sure that the entire document is coherent still, which is easier said than done because some of the sentences are definitely not coherent so I need to work back to figure out what we were originally trying to say.

(more…)

Dissertation crossroads

It had to happen sooner or later, I have too many PI’s, and it was bound to cause some chaos in my life. The short version, in case you don’t want the longer one, is that I need to decide if my dissertation project is really the way I want to go about my degree. I have some options for what I want to do for my dissertation and my hospital-PI has offered several alternatives to the original path I was planning. It’s a tempting offer too, I just don’t know which one would be the better option or if there really is a choice here since I’ve technically already committed to the other project.

(more…)

One presentation done!

Today was the final presentation on some research I did. The road was long and I wish I could blame it all on COVID, but there was a lot for me to learn between when we started and now. I’m happy with the outcome and I think my school-PI is happy as well. There’s still one minor milestone left and that’s the publication, but the paper is written and I’m waiting for edits from my co-authors, so the hard part is done at least.

(more…)

The how to of presentation design

With my three minute talk coming up (more here) I need to design my two slides and get my poster set. Since I don’t like doing more work than needed, instead of trying to figure out the order of things and blog about something else, I wanted to go over how I would be presenting my science, both for the talk and my poster. Ideally this would help others, but mostly it’s for me since I could use the format in the future. I would copy from my previous talks, but I like to mix it up a little and this isn’t quite as formal as some of the other talks I’ve had to give.

(more…)

The surgical scramble!

Today was an… interesting day. Saturday I mentioned that today I would be in the OR again, it feels like I’ve been living there for a bit now and I have to say I’m enjoying it, but things were a little more hectic than I had originally anticipated. I had arranged for everything to be ready well before the surgery took place, but as it turns out that wasn’t what happened and I was left to scramble in order to get everything working.

(more…)

Papers, experiments, and the week ahead

It’s going to be a busy week and the weekend has only just started. While I plan on taking some time to myself this weekend, I am going to be prepping for the week ahead today since tomorrow is halloween. There’s a lot of interesting stuff happening this week, so today I want to round up all the odds and ends to give you an idea of what the week will look like, but also to help me organize my thoughts as I get ready.

(more…)

Award interview and project update

Yesterday was the big interview between my school-PI, surgeon-PI, and myself. It was significantly longer than I expected it to be, but it was also strangely focused on me. That was completely unexpected, so I felt a little awkward, but I did it and we’re all very excited to start my project. I have some thoughts about the interview, but I also realized I haven’t really spoke about my “super secret” technique in a while so some of the newer followers may not even know what I’m talking about (don’t worry, it’s a super secret).

(more…)

Smile for the camera

Today is photo day! What is photo day you may ask? Well it’s the day we take pictures. Okay, probably a little brief, today is the day that we’re meeting with the lab and school public relations team to release a joint statement about our new award. It’s the first award for our new collaborator (surgical-PI, who I still need to find a better pseudonym for) since he just started his new lab at the hospital at the beginning of the year. While it’s not a major award (dollar amount), we tend to celebrate these things anyway, so we’re taking pictures together, surgical-PI is getting a tour of the school lab, and we’re going to get interviewed about the details of the project.

(more…)

Another award?!

Yet again I’ve managed to slip through the cracks, or maybe the standards were just that low. Whatever the reason, I’ve been selected to share my science in the form of a podium presentation. Yep I was awarded a spot to present my work at an upcoming event I’m required to attend (luckily it’s a masked event, because we’re all medical professionals) so I get to give a supposedly “fun” elevator pitch of my work. Just a few weeks away, I have to figure out what I want to say and how I want to share it. The issue isn’t so much that I’m speaking in front of a group (that isn’t on my computer), the challenge is the state of the project.

(more…)

An interesting experiment, maybe

I was debating about sharing this since I’m not sure if it will happen or not. More importantly, like all the experiments and stuff I do around here (or at least it feels that way) I can’t talk about it in detail. Instead I can talk about why I’m excited about it in particular and why it may not even happen. Which, considering I’m still trying to recover from surgery, may not be a bad thing!

(more…)

The two year countdown

Yesterday was exhausting! In the end though I had a meeting with my school-PI (I think that’s as good a nickname as any) and we discussed what my timeline is and when I see myself graduating. A lot of what we discussed revolved around the funding we just got and the fact that I’ve just taken a new job doing research full-time in a clinical (see: hospital) setting. The talk went well, he’s been supportive of the fact that I took this job and even though it’s caused some friction between school-PI and hospital-PI (formerly main-PI and Co-PI respectively) things are settling down some and I’m hoping to find some minor and probably temporary stability in life.

(more…)

On to the next paper

With one of my four papers finished and finally accepted for publication (yay!) it’s time to switch gears to getting the others done. That said, progress has been made and I’m stuck swapping between two papers at the same time since both need to be done and submitted soon. There’s some analysis that needs to happen, figures to be made, code to be written, just a lot of loose ends to tie up.

(more…)

The plastic spinal cord

Amazing spinal cord slice artwork by Greg Dunn

You can’t teach an old spinal cord new tricks, or something like that. Up until recently (like the last ten or fifteen years), we had thought that the spinal cord was a fixed thing. It was the information highway of the body and its primary role was to receive, sort, and send information from the brain to the body and vice versa. That’s (thankfully) not the case. The truth, or at least something closer to the truth, is that the spinal cord is a lot like the brain. It can learn, think, and even act independently of the brain.

(more…)