Sunday, June 26, 2022

What Have I Been up to?


People often wonder about what I do.  Physics professors such as me are eternally busy, often doing self-imposed work at all hours of the day, including weekends.  One of the advantages of a faculty position is the flexibility to take some little bits of time off here and there to recharge ones batteries.

When I pay myself summary salary from a grant, usually for no more than two months out of the three summer months, I end up working all of the time.  Summer provides the opportunity to catch up on research backlog, which builds up during the academic year due to teaching and service commitments.

A week ago, I took Monday off to drive up to our wilderness north of Spokane to work on installing a solar power collection system.  Even though I had worked through the weekend, it was difficult to pull myself away from all the accumulated commitments;  I had considered cancelling the trip several time until I got behind the wheel of my car.

The outing was worth it.  Working in the wilderness under blue skies and pure air rejuvenates the body and mind.  It's the only activity that completely removes even the slightest pang of anxiety from the pile-up of work demanding my attention.  Upon my return, I am more efficient and approach the tasks at hand with a reduced level of anxiety.

A glimpse of my recent activities can be gleaned for a narrative I was required to provide with my annual review materials.  It is reproduced below in its raw and unedited form.  Please excuse all of the typos and awkwardness, which is partially due to my distaste for having to write about my activities -- a process akin to holding one's breadth while trying to quickly empty the trash at the county landfill.

Here it is:

As described below, much of my work integrates teaching and research, making a fuzzy demarcation between the two, such as turning our research-grade apparatus into one that can be built by a high school student.

Research

Since the last review, I published 10 papers in six distinct refereed journals, all of them in the top tier of their specialty.  The work spans from fundamental quantum mechanics to applications and covers cutting-edge research, pedagogy, and broad-interest topics.  Highlights of the work follows.

The highest impact paper was a massive 170-page invited review article/tutorial that appeared in Advances in Optics and Photonics and covers the new emerging field of photomechanics.  A related invited paper, which included new research results, appeared in Journal of the Optical Society of America B.  Most recently we published a definitive paper on the mechanisms of the photomechanical effect in dye-doped polymer optical fibers, which appeared in Applied Sciences.  The latter work combines several experiments and varying conditions and two independent theories that together pin down the mechanisms with more confidence than would be possible with a single measurement and theory.  These three papers together position our group at WSU as a leader in the field.

On the pedagogy front, we published several articles in the American Journal of Physics.  One paper describes using a mobile phone for collecting data at home, enabling isolated students to do labs remotely.  A more fundamental paper elucidates subtle concepts underlying the Quantum no-cloning theorem and entanglement.  Finally, the paper on quantum length introduces new ideas and paradoxes that challenge our understanding of quantum mechanics and measurement.

A fundamental paper that describes a new method of using a proxy state to account for the quantum continuum appeared in Optics Letters while an applied paper on distributed Bragg fiber lasers that self-heal after burning out appeared in Applied Physics Letters, earning an Editors Choice recognition.  A  unique paper on how the nonlinear-optical response of novel hybrid quantum systems can be controlled with topology appeared in Journal of the Optical Society of America B.

Our visibility in the field of photomechanical materials and devices continues to increase with increased international exposure.  I gave the Keynote Address on the topic at the SPIE meeting in San Diego and presented an invited seminar at the Abu Dhabi Campus of New York University in the United Arab Emirates.  I have also been invited to speak at an international meeting in Cetraro, Italy on this topic.

I have been invited to guest-edit a special issue on photomechanical materials and applications for Applied Sciences and have already assembled an international team of co-editors.  This will enhance our visibility in the field. 

The quantum work continues to generate interest.  I presented our work on quantum NLO theory at the Foundations of nonlinear Optics as an invited speaker held at the Air Force Institute of Technology in Dayton, OH.

My work in fundamental quantum mechanics and pedagogy was presented in two Colloquiums: one at Colgate University and one at Skidmore College.  In addition to the technical presentation, I also presented an overview of our department and graduate program for recruitment purposes.

Our work over the past 10 years has focused on the physics of photomechanical materials and their applications, understanding the mechanism behind self-healing in dye-doped polymeric materials, and studying the quantum origins of the nonlinear-optic response.  We are in the process of transitioning into new areas while fortifying existing research strengths.

Taking advantage of the NLO Lab’s present strength in photomechanics, we are pursuing single-PI grants to support work with collaborators who make materials.  The near-term goal is to reinforce our interactions with international colleagues such as the exceptional groups at Tempere University in Finland and others in Morocco and Japan.  The long-term goal is to compete for larger grants.  The self-healing work, on the other hand, is attractive based on our past dominance in the field.  We have submitted a white paper to AFOSR, who share an interest in the topic.  However, we have experienced delays due to personnel changes at AFOSR.  Our group is still competitive in quantum nonlinear optics, so I plan on sending a proposal to NSF.  My efforts in the near future will focus on getting at least one of these three viable projects funded.

To leverage our unique abilities in quantum NLO, I am investing a significant effort in developing a framework for implementing quantum computing using nonlinear optics to color-entangle photons.  Given the large investment being made by the United States in quantum computing due to its importance to national security and competitiveness in the high-tech markets, the rewards are high but so are the risks.  I plan to focus most of my energy on this work throughout this calendar year and working on white papers with our larger physics-based team.

Teaching

I continue to teach undergraduate and graduate courses, advise graduate students in their masters and dissertation research, and advise undergraduates who are working on research and thesis projects.  Since 2018, I have graduated three PhD students and have served on numerous graduate thesis and dissertation committees.   Many of these students have been awarded mini-grants from within the university at the departmental and college level.  Traditional courses that I have taught over this period include Physics 320, Physics 533, Physics 534 and Physics 545.  I arranged for free licenses of Origin to be made available to students in Physics 320 and Physics 545 for class projects.  The first author in the American Journal of Physics publication on using cell phones for data was an undergraduate student whose research originated as a class project.  I also did similar projects with students taking the undergraduate seminar.

Service

I am active in service at all levels within the university and in my profession.  I advise the student chapters of OPTICA/SPIE, which do lots of outreach and run the laser maze during various university events.  I’m on the departmental committee for producing the APS video which will be used for recruitment, work with the College on undergraduate weekend recruitment presentations and have been involved in producing the departmental Comprehensive exam.

At the professional level I am on the editorial board or editor for several journals, act as a reviewer for more journals than I can count and have been awarded IOP trusted reviewer status.  The citation reads: “IOP trusted reviewer status acknowledges that you have demonstrated a high level of peer review competence, with the ability to critique scientific literature to an excellent standard.  You are one of our first reviewers to have achieved this status, so congratulations!”  I am active in organizing international conferences, two of which I founded: International Conference on Organic Nonlinear Optics (ICONO) and Foundations of Nonlinear Optics (FoNLO). 

Friday, February 25, 2022

Hockey as a cure for COVID

Two years ago, I caught COVID classic. Five days later, not knowing that I was sick, I played ice hockey while wearing a mask just at the onset of peak symptoms. The next day I felt much better but got the PCR test anyway, learning 48 hours later that I was positive. Based on my personal experience, I am writing to inform your readers that vigorous exercise in cold air while wearing a mask cures the coronavirus. Disclaimer: the medical establishment warns against strenuous activity while infected with COVID.


I don’t care that scientists meticulously design studies and experiments to control for artifacts and bias. I don’t trust the experts at the CDC and other apolitical science-based government agencies who summarize the results based on a careful analysis of the aggregate data from the scientific literature. I don’t believe that reliable data should inform policy.

I trust personal experience above all else, so I know that playing ice hockey cured me of COVID.

Wednesday, December 29, 2021

Publications, Metrics and Reputation

 Here is an email I sent to my students about publications and reputation based on a recent paper that just appeared online.  I have removed names to conceal the names of parties that might prefer to remain anonymous.

Dear all,

A conversation about publications often comes up between graduate students and their research mentors.  I know that we have talked about this multiple times.  A valid concern of many students is the strength of their publications record, which is used by future academic employers.  It is easy to count numbers of publications or metrics such as the h-index, but an individual’s reputation is based on substance not simplistic numbers.

First, the research itself must be interesting and useful to others.  There are many papers that wow me even if I never cite them in my own research, winning my highest respect for those who create such gems.  You should work hard and enjoy the process of making new discoveries, and then hold yourselves to the highest standards for the work that you produce.  This is what will open doors to future employment.

The email below from one of my colleagues serves as an example of the reputation that you should seek to build over time.  I hope that this kind of feedback motivates you to persevere through the next phase of your work.  I certainly look forward to all the new insights that we will gain.

To conclude, I congratulate you for your contributions to this work.  I know that some of you were frustrated having to rebuild experiments, repeat measurements, and rewrite the manuscript an endless number of times as we found errors in the calculations and problems with the apparatus.  But in the end, I am proud of the final product, which I believe will be of use to others.

Happy New Year!

 

Best,

Mark G. Kuzyk

Regents Professor of Physics

Washington State University

Pullman, WA 99164-2814

 

Phone: 509-335-4672

Fax: 509-335-7816

 

Web Page: www.NLOsource.com

 

From: [Colleague]
Sent: Wednesday, December 29, 2021 9:11 AM
To: Kuzyk, Mark G <kuz@wsu.edu>; Mark G. Kuzyk <mgk.wsu@gmail.com>
Subject: Fwd: [Applied Sciences] Manuscript ID: applsci-1500266; doi: 10.3390/app12010315. Paper has been published.

Dear Mark,

I forwarded this new paper to my group members. You never cease to amaze me with the thoroughness and rigor of your research. What an amazing piece this last report is! We have a lot to learn from you, indeed.

I will enjoy reading the paper. I hope we can meet up at some point to continue our discussions. [My senior student] will be graduating in January and he wants to pursue a career in the corporate world. I have another student who is a bright and enthusiastic, and we can consider sending him to your lab, if the things with the pandemic get better.

Take care of your health,

[Colleague]

---------- Forwarded message ---------
From: Applied Sciences Editorial Office <applsci@mdpi.com>
Date: Wed, Dec 29, 2021 at 5:02 PM
Subject: [Applied Sciences] Manuscript ID: applsci-1500266; doi: 10.3390/app12010315. Paper has been published.
To: Colleague
Cc: Applied Sciences Editorial Office <applsci@mdpi.com>, Keira Wang <keira.wang@mdpi.com>

Dear [Professor],


We are pleased to inform you that "Photothermal and Reorientational
Contributions to the Photomechanical Response of DR1 Azo Dye-Doped PMMA
Fibers" by Zoya Ghorbanishiadeh, Bojun Zhou, Morteza Sheibani Karkhaneh,
Rebecca Oehler, Mark G. Kuzyk * has been published in Applied Sciences as
part of the Special Issue Composite and Smart Materials: Theory, Methods and
Applications and is available online:

Abstract: https://urldefense.proofpoint.com/v2/url?u=https-3A__www.mdpi.com_2076-2D3417_12_1_315&d=DwIDaQ&c=slrrB7dE8n7gBJbeO0g-IQ&r=8Rjnp4aNhHPBrmgt9k4Q6f-pu3z01qzkXZBySmc4rd8&m=o0b_FSbvMnSOnSSq65_Iqvm2Lzwws_d1R8DePemMmvVRGF0JjKCizRgc6-aV4Ati&s=NKk5yL3BySXUrbhhOaPR0aUISAStEHsLXfIt9ZbVctk&e=
HTML Version: https://urldefense.proofpoint.com/v2/url?u=https-3A__www.mdpi.com_2076-2D3417_12_1_315_htm&d=DwIDaQ&c=slrrB7dE8n7gBJbeO0g-IQ&r=8Rjnp4aNhHPBrmgt9k4Q6f-pu3z01qzkXZBySmc4rd8&m=o0b_FSbvMnSOnSSq65_Iqvm2Lzwws_d1R8DePemMmvVRGF0JjKCizRgc6-aV4Ati&s=t6QVhD-mbZqQY846ZCCoE2JzF67xY6qSi5A7TOImY3k&e=
PDF Version: https://urldefense.proofpoint.com/v2/url?u=https-3A__www.mdpi.com_2076-2D3417_12_1_315_pdf&d=DwIDaQ&c=slrrB7dE8n7gBJbeO0g-IQ&r=8Rjnp4aNhHPBrmgt9k4Q6f-pu3z01qzkXZBySmc4rd8&m=o0b_FSbvMnSOnSSq65_Iqvm2Lzwws_d1R8DePemMmvVRGF0JjKCizRgc6-aV4Ati&s=KrUea9tNwtMeC4JC2sXiRHNYB_UMo3nUyRQqeZfdlq4&e=
Special Issue:
https://urldefense.proofpoint.com/v2/url?u=https-3A__www.mdpi.com_journal_applsci_special-5Fissues_composite-5Fsmart-5Fmaterials&d=DwIDaQ&c=slrrB7dE8n7gBJbeO0g-IQ&r=8Rjnp4aNhHPBrmgt9k4Q6f-pu3z01qzkXZBySmc4rd8&m=o0b_FSbvMnSOnSSq65_Iqvm2Lzwws_d1R8DePemMmvVRGF0JjKCizRgc6-aV4Ati&s=8xdNAgcPAFbBFvgIf7SzfgeGSZTqc2tWgqC4aTa4zB4&e=


Wednesday, December 22, 2021

New Insights into the Obvious

The number of posts I publish here tends to rise around the holidays, when demands on my time temporarily wane, giving me time to think about interesting topics and reflect on life.  I reread a post from a while back, which talked about my frustrations with the hectic nature of my job and my desire to spend more time on deeper thought.  Click here for that post.  My goal was to understand some of the deeper consequences of quantum mechanics and how it underpins thermodynamics/statistical mechanics.

I have approached this goal over the last half decade by rethinking the most basic foundations of quantum mechanics; those topics that students quickly leapfrog to progress to the next stage of solving real research problems.  I find the need to build my intuition by mulling over these basics, perseverating over them until the meaning infuses my brain.  Once it becomes second nature, I can build on these foundations.

In the process skimming through typical textbooks, I found that the connection between quantum mechanics and density operators is not well made.  So, I wrote a simple two-page manuscript with a simple example that illustrates the important facts and submitted it to the American Journal of Physics.  One of the reviewers stated, “Reading this very short and sweet manuscript taught me something about density operators that I did not appreciate before; something that seems vitally important for both students -and- the general interested physicist to understand…

“The main thing I learned by reading this manuscript is that the apparent classical mixture form of the density matrix -always- originates from a purely quantum effect - entanglement with the environment. I almost cannot believe that I did not appreciate that before - interaction with the environment is certainly presented as the main issue to be solved in any open quantum system textbook. But the formalism obscures this, and I think I had come away with the impression that at least in some cases, the density matrix was really just used to represent a classical mixture. The use of the simple example here makes it extremely intuitive and obvious, which I think is just as the authors intended. However, I suggest three changes that I think will make this manuscript even better...

I find AJP a wonderful journal, authored and read by people who enjoy learning and appreciate new insights or an unexpected twist on a well-worn topic.

At the other extreme, we just had a paper accepted that developed two different models of how light can affect the mechanical properties of matter and used these models to interpret experiments to determine the underlying mechanisms.

This break I plan on continuing my work on a new project related to quantum computing, which is particularly exciting to me because it will require learning a lot of new material.

Stay tuned!


Thursday, October 28, 2021

Conspiracy Theorist Peter McCullough

I had a relative send me a link to me about Peter McCullough's claims that the mRNA shots are dangerous.  I responded with my take.  There are many more excellent resources than me on the topic, which I provide a link to below my post.  Here is my quick response.


Sunday, September 19, 2021

Self Test - Part II: the effect of ezetimibe on visceral fat

 

This post focuses on the power of smoothing, which is a process that picks out trends from noisy data.  We'll see that using a low-cost bathroom scale that has a visceral fat reading, we can see an observable effect that is correlated with the start of taking Ezetimibe, a cholesterol-reducing medication. 

My Yunmai bathroom scale provides a measure of visceral fat, that greasy stuff that lines our organs.  Higher percentages of it in our body increases risks of all sorts of diseases, so visceral fat is a good quantity to track and try to minimize.  The best way to reduce its percentage is to exercise to turn fat to muscle and to lose weight.

My scale has four electrodes, which are arranged in two pairs.  The left and right pair measure the resistance of the soles of each foot.  The resistance from one foot to the other measures the resistance of your body.  Combined with your weight and height, a formula is used to estimate the visceral fat.

I talked to an engineer at Cal Tech whose research was in the general area of biometrics, and she told me that such resistance measurements are related to the visceral fat, but they are not so accurate.  Furthermore, scales such as mine are biased towards the lower part of the body while those that use electrodes that you grasp in your hands is biased to the upper body.  So, corrections need to be made.

The bottom line is that I do not trust the absolute measurement but changes in the reading has some meaning provided that the scale is sensitive enough to detect the changes.  In my case, my reading ranges from 5 % to 9% percent as whole numbers.  The black points in the figure above show the visceral fat percentage as a function of date.  These points form horizontal lines at the whole numbers and alone give us very little useful information.

However, readings fluctuate between 8% and 9% at early times then between 7% and 8% and so on, implying that the visceral fat is falling with time.  Smoothing is the process of averaging adjacent points.  The red points show 50-point smoothing, where 25 consecutive points to the left of the data point and 25 to the right are averaged and plotted at the middle point of the range.  As a result, we get values between the whole numbers.  Suppose that my visceral fat is at 6.8%.  Then, the scale would read 7.0% more often that 6.0%, so the 50-point average would yield something around 6.8%.  Smoothing also eliminates day to day fluctuations that might hide the long terms trends.

The blue line shows 200-point smoothing, corresponding to over a half-year smoothing window.  This eliminates all but the most long-term trends.  The light blue vertical line in mid-2018 shows the date on which I started to take Ezetimibe, a medication that reduces cholesterol.  In my last post, I described how I used smoothing and a fit to a saturated exponential that found that my weight increased by 3 pounds after I started taking Ezetimibe.  The visceral fat data correlates with the observed weight gain.

To summarize the graph, smoothing shows my visceral fat falling from late 2016 and leveling off in early 2018 while I was on my high-fat diet.  This correlates with my weight loss.  Then, after taking Ezetimibe, my visceral fat started a long-term climb from 6% to about 6.5%.  Smoothing has allowed me to determine this rise to a precision that exceeds the whole numbers provided by the scale.

Finally, there is a dip in the 50-point smoothed curve that falls below 6%.  There is also one reading of 5% as seen by the black point.  The date corresponds to one week after my radical prostatectomy surgery and correlates with my initial weight loss then weight gain after the surgery.  Interestingly, the 200-point smoothed curve shows two plateaus – the first after starting the Ezetimibe and the second one after my prostate surgery.

As I have stressed in my past posts, this is a single experiment with potentially many confounding factors, so we cannot conclude that Ezetimibe increases visceral fat.  However, the result provides a hypothesis that could be tested with a larger number of participants.  Putting it all together, Ezetimibe drastically reduced my serum cholesterol (a huge effect that is consistent with controlled experiments) and is correlated with a small weight gain.  This added data shows that it might add to visceral fat.  This brings up the point that medications have complex effects on the body.  They work as intended to treat one condition, but the side effects might oppose some of the benefits.  In this case, the drop in cholesterol is far greater than the potentially ill effects of a small gain in visceral fat.

If there are others out there like me, pooling our data together could increase the confidence that the correlation is not a mere coincidence.  So give it a try!

Sunday, August 15, 2021

Self Testing - Part I

 Those of you who know me will not be surprised that I love data.  Even noisy data can bring a picture into focus if there is enough of it.  I collect data on all sorts of things but find biometrics fun because it’s easy to collect and it can potentially give useful insights.

A couple of previous posts alluded to some obvious trends that I have observed.  To all those people who mocked me decades ago for starting a low carb diet, contrary to their predictions that I would gain weight, I shed 50 pounds by eating mostly fat with a bit of protein and as few carbs as possible.  In the process, my cholesterol also dropped to healthy levels (see http://unknownphysicist.blogspot.com/2011/10/eating-lots-of-fat-to-lose-weight.html).  I kept my weight down for a decade.

After a trip to Belgium and then to Italy, I adopted a Mediterranean diet, which was a gateway to me eating lots of carbs again, which produced an upward spiral in my weight.  Then in 2012, when I had almost regained all the weight that I had lost, I went on a strict low carb diet for a second time.  Again, it worked, but over the last two years, I have struggled with a small weight gain, whose source I have tried to identify using my vast stores of data.

In the interim, PSA (prostate specific antigen) data that I had been tracking took off, as I described in my post describing my ordeal with prostate cancer. (see http://unknownphysicist.blogspot.com/2021/01/can-major-surgery-cure-depression.html and http://unknownphysicist.blogspot.com/2020/06/i-was-relieved-i-had-cancer.html)

The graph below shows my weight as a function of time.  There are a series of drops each followed by a plateau.  Also plotted are my measurements of total cholesterol and LDL cholesterol along with error bars that reflect the accuracy of my instrument.  LDL is the bad cholesterol.  My triglycerides were always very low, so I was not so concerned about my cholesterol while it slowly fell over 4 years (1500 days).  Then, for no apparent reason, my cholesterol shot up even as I was losing more weight.


  

Both my doctor and I got concerned with the rise, so he prescribed the highest dose of atorvastatin – which scrubs serum cholesterol.  My cholesterol remained high for months while taking it, so he sent me to a cardiologist, who suggested I add ezetimibe, which prevents cholesterol from being absorbed through the intestines.  I was reluctant to take ezetimibe because I had had a bad experience with Vytorin, which combines atorvastatin with ezetimibe.  I hadn’t realized how much energy Vytorin was sopping away (and resulting in weight gain) until I accidentally stopped taking it for a week.  I then regained my usual vigor.  That’s when I stopped Vytorin and went back to my strict diet.

My cardiologist suggested that I take an ultralow dose of Ezetimibe, which I did at the time shown by the vertical gray line in the plot.  Indeed, it drastically decreased my serum cholesterol, as you can see in the plots, and I retained my energy levels within my ability to notice.  And my weight appeared to remain stable, as shown within the gray dashed box.

The plot below shows a magnified view of my weight after starting to take Ezetimibe.  The raw data (points) is quite noisy and can vary by as much as 6 pounds over a few days.  That variation is real.  There are days when I exercise vigorously and might also dehydrate, so I could easily lose a few pounds, which I regain when hydrating and remaining sedentary for a few days.



The raw weight data does not appear to show any trends.  However, a plot of 50 (dark curve) and 100 point smoothed data (gray curve) shows a different story.  My weight appears to be increasing and it also fluctuates over time.  The fluctuations might also be real due to seasonal variations in my diet and activity.  The gray vertical dashed line falls on the date that I started taking Ezetimibe and the pink dashed line when I had prostate surgery.  Each seems to have been responsible for some weight gain.

Next I fit the raw data to saturated exponentials starting at the time I began my Ezetimibe regimen (light blue curve) and then after prostate surgery (magenta curve).   The fit shows that the Ezetimibe resulted in almost a 3 pound weight gain (when averaged over a couple months).  This is consistent with the fact that I observed a huge weight increase when I was taking a larger dose.  I gained a little less than two pounds after my radical prostatectomy.  Though minor, I have noticed a little edema around the incision area, so this increase is also explainable.

The skeptic might complain that the pink curve start lower than the flat part of the blue curve.  A closer examination of the data right after my surgery shows that my weight dropped by 5 pounds from the previous baseline for a week right after surgery, so that biases the early parts of the fit.  However, all of the fits and the smoothed data nicely follow each other aside from seasonal variations.

I would not conclude form my data that ezetimibe results in weight gain nor that prostate surgery does so too.  However, the data is suggestive that this might be the case and my data is consistent with secondary observations.  I find it amazing how such small effects can be drawn from the data and gives a small level of confidence that it might be true.

In the meantime, I continue to take and analyze the data to see if any other correlations emerge that might signal an interesting underlying cause.  Apologies for typos and the like, but my Fitbit just informed me that I missed my 250 step goal this hour while writing.  So I have to get up and walk...