update cv with yaq paper

3 files changed, 99 insertions, 68 deletions

diff --git a/public/ThompsonBlaiseCV.pdf b/public/ThompsonBlaiseCV.pdf
index cfad5b0..9bf9e4d 100644
--- a/public/ThompsonBlaiseCV.pdf
+++ b/public/ThompsonBlaiseCV.pdf
diff --git a/public/ThompsonBlaiseCV.tex b/public/ThompsonBlaiseCV.tex
index 1c1fc87..1d04387 100644
--- a/public/ThompsonBlaiseCV.tex
+++ b/public/ThompsonBlaiseCV.tex
@@ -37,7 +37,7 @@
     {John C. Wright Group - ultrafast materials spectroscopy}{Madison WI}
     \item Dissertation: \emph{Development of Frequency Domain Multidimensional Spectroscopy with \\
     Applications in Semiconductor Photophysics}
-    [\href{https://drive.google.com/open?id=1Ik2aaVaT-60R2KSATaFOlG5qDiR_xRze}{PDF}]
+    [\href{https://doi.org/10.5281/zenodo.7627321}{doi:10.5281/zenodo.7627321}]
     \item Designed and constructed software tools to collect and process multidimensional spectra.
     \item Designed and constructed optomechanical and electronic hardware.
     \item Maintained and conducted experiments on a custom ultrafast laser system.
@@ -63,89 +63,99 @@
 
 \begin{rSection}{Publications \MakeLowercase{(see \href{http://cv.blaise.zone/\#publications}{my online CV} for more context)}}
   \begin{etaremune}[leftmargin = 1.75em]
-    \item
-      Kregel, S. J.; \textbf{Thompson, B. J.}; Nathanson, G. M.; \& Betram, T. H.
+    \vfill \item
+      The yaq project: Standardized software enabling flexible instrumentation \\
+      Sunden, K. F.; Kohler, D. K.; Meyer, K. A.; Cruz Parrilla, P. L.; Wright, J. C.; \& \underline{Thompson, B. J.}
+      (2023)
+      \textit{Review of Scientific Instruments}.
+      \href{https://doi.org/10.1063/5.0135255}{doi:10.1063/5.0135255}
+    \vfill \item
+      The Wisconsin Oscillator: A Low-Cost Circuit for Powering Ion Guides, Funnels, and Traps \\
+      Kregel, S. J.; \underline{Thompson, B. J.}; Nathanson, G. M.; \& Betram, T. H. \\
       (2021)
-      The Wisconsin Oscillator: A Low-Cost Circuit for Powering Ion Guides, Funnels, and Traps
-      \textit{Organic Letters}.
+      \textit{Journal of the American Society for Mass Spectrometry}.
       \href{https://doi.org/10.1021/jasms.1c00247}{doi:10.1021/jasms.1c00247}
-    \item
-      Lampkin, P. P.; \textbf{Thompson, B. J.}; \& Gellman, S. H.
+    \vfill \item
+      Versatile Open-Source Photoreactor Architecture for Photocatalysis Across the Visible Spectrum \\
+      Lampkin, P. P.; \underline{Thompson, B. J.}; \& Gellman, S. H. \\
       (2021)
-      Versatile Open-Source Photoreactor Architecture for Photocatalysis Across the Visible Spectrum.
-      \textit{Organic Letters}, 23, 13, 5277–5281.
+      \textit{Organic Letters}.
       \href{https://doi.org/10.1021/acs.orglett.1c01910}{doi:10.1021/acs.orglett.1c01910}
-    \item
-      Salazar, C.; \textbf{Thompson, B. J.}; Knapp, S.; Myers, S. \& Stahl, S. S.
+    \vfill \item
+      Multichannel gas-uptake/evolution reactor for monitoring liquid-phase chemical reactions. \\
+      Salazar, C.; \underline{Thompson, B. J.}; Knapp, S.; Myers, S. \& Stahl, S. S. \\
       (2021)
-      Multichannel gas-uptake/evolution reactor for monitoring liquid-phase chemical reactions.
       \textit{Review of Scientific Instruments}, 92:044103.
       \href{https://doi.org/10.1063/5.0043007}{doi:10.1063/5.0043007}
-    \item
-      Ravindran, P.; \textbf{Thompson, B. J.}; Soares, R. K. \& Wiedenhoeft, A. C.
+    \vfill \item
+      The XyloTron: Flexible, Open-Source, Image-Based Macroscopic Field Identification of Wood Products. \\
+      Ravindran, P.; \underline{Thompson, B. J.}; Soares, R. K. \& Wiedenhoeft, A. C. \\
       (2020)
-      The XyloTron: Flexible, Open-Source, Image-Based Macroscopic Field Identification of Wood Products.
-      \textit{Frontiers in Plant Science}, 11:1015. \\
-      \href{https://doi.org/10.3389/fpls.2020.01015}{doi:10.3389/fpls.2020.01015}
-    \item \textbf{Thompson, B. J.}; Sunden, K. F.; Morrow, D. K.; Neff-Mallon, N. A. \& Wright, J. C.
+      \textit{Frontiers in Plant Science}. \href{https://doi.org/10.3389/fpls.2020.01015}{doi:10.3389/fpls.2020.01015}
+    \vfill \item
+      WrightTools: a Python package for multidimensional spectroscopy. \\
+      \underline{Thompson, B. J.}; Sunden, K. F.; Morrow, D. K.; Neff-Mallon, N. A. \& Wright, J. C. \\
       (2019)
-      WrightTools: a Python package for multidimensional spectroscopy.
-      \textit{The Journal of Open Source Software}, 4(33), 1141. \\
-      \href{https://doi.org/10.21105/joss.01141}{doi:10.21105/joss.01141}
-    \item Handali, J. D.; Neff-Mallon, N.; Sunden, K. F.; \textbf{Thompson, B. J.}; Brunold, T. C
-      \& Wright, J. C.
+      \textit{The Journal of Open Source Software}. \href{https://doi.org/10.21105/joss.01141}{doi:10.21105/joss.01141}
+    \vfill \item
+      Mixed vibrational-electronic Coherent Multidimensional Spectroscopy \\
+      Reveals the Electronic Structure of Co(III)balamins Cyanocobalamin and detuerated Aquacobalamin. \\
+      Handali, J. D.; Neff-Mallon, N.; Sunden, K. F.; \underline{Thompson, B. J.}; Brunold, T. C \& Wright, J. C. \\
       (2018)
-      Mixed vibrational-electronic Coherent Multidimensional Spectroscopy Reveals the Electronic
-      Structure of Co(III)balamins Cyanocobalamin and detuerated Aquacobalamin.
-      \textit{The Journal of Physical Chemistry A} 122 (46), pp 9031–9042.
-      \href{https://doi.org/10.1021/acs.jpca.8b07678}{doi:10.1021/acs.jpca.8b07678}
-    \item Kohler, D. D., \textbf{Thompson, B. J.} \& Wright, J. C.
+      \textit{The Journal of Physical Chemistry A}. \href{https://doi.org/10.1021/acs.jpca.8b07678}{doi:10.1021/acs.jpca.8b07678}
+    \vfill \item
+      Resonant Third-Order Susceptibility of PbSe Quantum Dots \\
+      Determined by Standard Dilution and Transient Grating Spectroscopy. \\
+      Kohler, D. D., \underline{Thompson, B. J.} \& Wright, J. C. \\
       (2018)
-      Resonant Third-Order Susceptibility of PbSe Quantum Dots Determined by Standard Dilution
-      and Transient Grating Spectroscopy.
-      \textit{The Journal of Physical Chemistry C}, 122 (31), 18086–18093.
+      \textit{The Journal of Physical Chemistry C}.
       \href{http://doi.org/10.1021/acs.jpcc.8b04462}{doi:10.1021/acs.jpcc.8b04462}
-      \href{https://doi.org/10.17605/OSF.IO/3VPRB}{osf.io/3vprb}.
-    \item Sunden, K. F., \textbf{Thompson, B. J.} \& Wright, J. C.
+    \vfill \clearpage \vfill \item
+      WrightSim: Using PyCUDA to Simulate Multidimensional Spectra \\
+      Sunden, K. F., \underline{Thompson, B. J.} \& Wright, J. C. \\
       (2018)
-      WrightSim: Using PyCUDA to Simulate Multidimensional Spectra
-      \textit{Proceedings of the 17th Python in Science Conference}
+      \textit{Proceedings of the 17th Python in Science Conference}.
       \href{https://doi.org/10.25080/Majora-4af1f417-00c}{doi:10.25080/Majora-4af1f417-00c}
-    \item Horak, E. H.; Rea, M. T.; Heylman, K. D.; Gelbwaser-Klimovsky, D.; Saikin, S. K.;
-      \textbf{Thompson, B. J.}; Kohler, D. D.; Knapper, K. A.; Wei, W.; Pan, F.; Gopalan, P.;
-      Wright, J. C.; Aspuru-Guzik, A. \& Goldsmith, Randall H.
+    \vfill \item
+      Exploring Electronic Structure and Order in Polymers via Single-Particle Microresonator Spectroscopy. \\
+      Horak, E. H.; Rea, M. T.; Heylman, K. D.; Gelbwaser-Klimovsky, D.; \\
+      Saikin, S. K.; \underline{Thompson, B. J.}; Kohler, D. D.; Knapper, K. A.; Wei, W.; Pan, F.; \\
+      Gopalan, P.; Wright, J. C.; Aspuru-Guzik, A. \& Goldsmith, Randall H. \\
       (2018)
-      Exploring Electronic Structure and Order in Polymers via Single-Particle Microresonator
-      Spectroscopy.
       \textit{Nano Letters}
       \href{https://doi.org/10.1021/acs.nanolett.7b04211}{doi:10.1021/acs.nanolett.7b04211}
-    \item Kohler, D. D.; \textbf{Thompson, B. J.} \& Wright, J. C.
+    \vfill \item
+      Frequency-domain coherent multidimensional spectroscopy when dephasing rivals pulsewidth: \\
+      Disentangling material and instrument response. \\
+      Kohler, D. D.; \underline{Thompson, B. J.} \& Wright, J. C. \\
       (2017)
-      Frequency-domain coherent multidimensional spectroscopy when dephasing rivals pulsewidth:
-      Disentangling material and instrument response.
-      \textit{The Journal of Chemical Physics}, 147(8), 84202.
+      \textit{The Journal of Chemical Physics}.
       \href{https://doi.org/10.1063/1.4986069}{doi:10.1063/1.4986069}
-    \item Czech, K. J.; \textbf{Thompson, B. J.}; Kain, S.; Ding, Q.; Shearer, M. J.; Hamers,
-      R. J.; Jin, S. \& Wright, J. C.
+    \vfill \item
+      Measurement of Ultrafast Excitonic Dynamics of Few-Layer MoS$_2$ \\
+      Using State-Selective Coherent Multidimensional Spectroscopy. \\
+      Czech, K. J.; \underline{Thompson, B. J.}; Kain, S.; Ding, Q.; Shearer, M. J.; \\
+      Hamers, R. J.; Jin, S. \& Wright, J. C. \\
       (2015)
-      Measurement of Ultrafast Excitonic Dynamics of Few-Layer MoS$_2$ Using State-Selective
-      Coherent Multidimensional Spectroscopy.
-      \textit{ACS Nano}, 9(12), 12146–12157.
+      \textit{ACS Nano}.
       \href{https://doi.org/10.1021/acsnano.5b05198}{doi:10.1021/acsnano.5b05198}
-    \item Fu, Y.; Meng, F.; Rowley, M. B.; \textbf{Thompson, B. J.}; Shearer, M. J.;
-      Ma, D.; Hamers, R. J.; Wright J. C. \& Jin, S.
+    \vfill \item
+      Solution Growth of Single Crystal Methylammonium Lead Halide Perovskite Nanostructures \\
+      for Optoelectronic and Photovoltaic Applications. \\
+      Fu, Y.; Meng, F.; Rowley, M. B.; \underline{Thompson, B. J.}; Shearer, M. J.; Ma, D.; \\
+      Hamers, R. J.; Wright J. C. \& Jin, S. \\
       (2015)
-      Solution Growth of Single Crystal Methylammonium Lead Halide Perovskite Nanostructures for
-      Optoelectronic and Photovoltaic Applications.
-      \textit{Journal of the American Chemical Society}, 137(17), 5810–5818.
+      \textit{Journal of the American Chemical Society}.
       \href{https://doi.org/10.1021/jacs.5b02651}{doi:10.1021/jacs.5b02651}
-    \item Cabán-Acevedo, M.; Kaiser, N. S.; English, C. R.; Liang, D.; \textbf{Thompson, B. J.};
-      Chen, H.-E.; Czech, K. C.; Wright, J. C.; Hamers, R. J. \& Jin, S.
+    \vfill \item
+      Ionization of High-Density Deep Donor Defect States Explains \\
+      the Low Photovoltage of Iron Pyrite Single Crystals. \\
+      Cabán-Acevedo, M.; Kaiser, N. S.; English, C. R.; Liang, D.; \underline{Thompson, B. J.}; \\
+      Chen, H.-E.; Czech, K. C.; Wright, J. C.; Hamers, R. J. \& Jin, S. \\
       (2014)
-      Ionization of High-Density Deep Donor Defect States Explains the Low
-      Photovoltage of Iron Pyrite Single Crystals.
-      \textit{Journal of the American Chemical Society}, 136(49), 17163–17179.
+      \textit{Journal of the American Chemical Society}.
       \href{https://doi.org/10.1021/ja509142w}{doi:10.1021/ja509142w} \\
+    \vfill
   \end{etaremune}
 \end{rSection}
 
@@ -153,34 +163,34 @@
 
 \begin{rSection}{Presentations}
   \begin{etaremune}[leftmargin = 1.75 em]
-    \item \textit{Invited Speaker:} \textbf{Thompson, B. J.}
+    \item \textit{Invited Speaker:} \underline{Thompson, B. J.}
       Scientific Software Development: A Pragmatic Approach
       (2020)
       \textit{University of Colorado Boulder Department of Chemistry.}
       Boulder, CO USA
       [\href{http://cv.blaise.zone/boulder-2020-05-07.pdf}{PDF}]
-    \item \textit{Presentation:} \textbf{Thompson, B. J.}
+    \item \textit{Presentation:} \underline{Thompson, B. J.}
       Nonlinear Multidimensional Spectroscopy.
       (2017)
       \textit{Chaos and Complexity Seminar.}
       Madison, WI USA
       [\href{http://cv.blaise.zone/chaos-2017-11-07.pdf}{PDF}]
     \item \textit{Poster:}
-      \textbf{Thompson, B. J.}
+      \underline{Thompson, B. J.}
       A Robust, Fully Automated Algorithm to Collect High Quality OPA Tuning Curves.
       (2016)
       \textit{CMDS 2016.}
       Groningen, the Netherlands
       [\href{https://drive.google.com/open?id=1hKj5MW_ms2d92Zj-Q06PTVIVBvIqfN3C}{PDF}]
     \item \textit{Poster:}
-      \textbf{Thompson, B. J.}
+      \underline{Thompson, B. J.}
       Utilizing Coherent Multidimensional Spectroscopy to Investigate Nanomaterials for Solar
       Energy Generation.
       (2012)
       \textit{Midwest Universities Analytical Chemistry Conference'}.
       Madison, WI USA
     \item \textit{Poster:}
-      \textbf{Thompson, B. J.}
+      \underline{Thompson, B. J.}
       Spectroscpic Investigation of Plasmonic Nanoparticles.
       (2011)
       \textit{Bates College Mount David Summit.}
@@ -220,8 +230,8 @@
 \clearpage
 
 \begin{rSection}{Teaching Experience}
-  \begin{rSubsection}{Graduate Chemical Instrumentation: Design \& Control (Electronics)}{2017, 2019 - 2022}
-    {5 semesters}{UW-Madison}
+  \begin{rSubsection}{Graduate Chemical Instrumentation: Design \& Control (Electronics)}{2017, 2019 - 2023}
+    {6 semesters}{UW-Madison}
     \item Led laboratory section of course.
     \item Introduced graduate students to basic electronics skills such as bread-boarding,
       oscilloscope usage, \\ component choice and enclosure design and construction.
diff --git a/public/index.html b/public/index.html
index 81b7a62..22049f5 100644
--- a/public/index.html
+++ b/public/index.html
@@ -83,7 +83,7 @@ Thanks for stopping by! —Blaise
     <li>Contributed to general-purpose multidimensional spectra modeling software.</li>
     <li>Taught fellow students how to use instruments.</li>
 </ul>
-For more information, see my dissertation: <a href="https://drive.google.com/open?id=1Ik2aaVaT-60R2KSATaFOlG5qDiR_xRze">Development of Frequency Domain Multidimensional Spectroscopy with Applications in Semiconductor Photophysics</a>
+For more information, see my dissertation: <a href="https://doi.org/10.5281/zenodo.7627321">Development of Frequency Domain Multidimensional Spectroscopy with Applications in Semiconductor Photophysics</a>
 
 <header><h3><p class=space-between>
     <span>Undergraduate Researcher (Plasmonics)</span>
@@ -121,7 +121,28 @@ For more information, see my thesis: <a href="https://drive.google.com/open?id=1
 <ol reversed>
 
 <li>
-<header><h3><a href=" https://doi.org/10.1021/jasms.1c00247">The Wisconsin Oscillator: A Low-Cost Circuit for Powering Ion Guides, Funnels, and Traps</a></h3>
+<header><h3><a href="https://doi.org/10.1021/jasms.1c00247">The yaq project: Standardized software enabling flexible instrumentation </a></h3>
+<em>
+    Sunden, K. F.;
+    Kohler, D. K.;
+    Meyer, K. A.;
+    Cruz Parrilla, P. L.;
+    Wright, J. C.;
+    and
+    Thompson, B. J.
+</em><br>
+Review of Scientific Instruments (2023)
+<ul>
+  <li>Invented a new, standardized way of communicating with hardware peripherals.</li>
+  <li>Software is highly modular, configurable.</li>
+  <li>Used by multiple research groups from different fields.</li>
+  <li>Collaborated with others around the world to "build bridges" between adjacent software projects.</li>
+  <li>Project continues to grow after publication, with documentation at <a href="https://yaq.fyi/">yaq.fyi</a>.</li>
+</ul>
+</li>
+
+<li>
+<header><h3><a href="https://doi.org/10.1021/jasms.1c00247">The Wisconsin Oscillator: A Low-Cost Circuit for Powering Ion Guides, Funnels, and Traps</a></h3>
 <em>
     Kregel, S. J.;
     Thompson, B. J.;