revision: made format updates

abstract.tex

@@ -1,19 +1,21 @@
 \begin{center}
     Abstract of the Dissertation  \\
-    \vspace{0.25cm}
-    \textbf{\ttitle}  \\
-    \vspace{0.25cm}
+    \vspace{0.2cm}
+    \textbf{Transmitter Localization and Optimizing Initial State in Classical/Quantum Sensor Networks}  \\
+    \vspace{0.2cm}
     by    \\
-    \vspace{0.25cm}
-    \textbf{\authorname}  \\
-    \vspace{0.25cm}
+    \vspace{0.2cm}
+    \textbf{Caitao Zhan}  \\
+    \vspace{0.2cm}
     \textbf{Doctor of Philosophy}  \\
-    \vspace{0.25cm}
+    \vspace{0.2cm}
     \textsc{in}  \\
-    \vspace{0.25cm}
+    \vspace{0.2cm}
     \textbf{Computer Science}   \\
-    \vspace{0.25cm}
+    \vspace{0.2cm}
     Stony Brook University    \\
+    \vspace{0.2cm}
+    \textbf{2024}
 \end{center}
 
 In shared spectrum systems, it is important to be able to localize simultaneously present multiple intruders 

acknowledgement.tex

@@ -1,4 +1,8 @@
-\chapter{Acknowledgments}
+\pagebreak
+
+\section*{\centerline{{\textbf{Acknowledgments}}}}
+
+\addcontentsline{toc}{chapter}{Acknowledgments}
 
 
 I would like to express my sincere gratitude to my advisor, Prof. Himanshu Gupta, for his guidance and support throughout this journey. 

bib.bib

@@ -2535,7 +2535,7 @@ @inproceedings{lyu-2022-trojaned
 
 @article{lyu-clinical,
     title = "A Multimodal Transformer: Fusing Clinical Notes with Structured EHR Data for Interpretable In-Hospital Mortality Prediction",
-    author =  "Lyu, Weimin and Dong, Xinyu and Wong, Rachel and Zheng, Songzhu and Abell-Hart, Kayley and others",
+    author =  "Lyu, Weimin and Dong, Xinyu and Wong, Rachel and Zheng, Songzhu and others",
     journal = "AMIA Annual Symposium Proceedings",
     year = "2022",
 }
@@ -2699,6 +2699,32 @@ @article{wanyu2024
 year = {2024}
 }
 
+@misc{wanyu2024_2,
+      title={Multi-task Magnetic Resonance Imaging Reconstruction using Meta-learning}, 
+      author={Wanyu Bian and Albert Jang and Fang Liu},
+      year={2024},
+}
+
+@article{wanyu2023,
+  author={Bian, Wanyu and Jang, Albert and Zhang, Liping and Yang, Xiaonan and Stewart, Zachary and Liu, Fang},
+  journal={IEEE Transactions on Medical Imaging}, 
+  title={Diffusion Modeling with Domain-conditioned Prior Guidance for Accelerated {MRI} and {qMRI} Reconstruction}, 
+  year={2024},
+}
+
+@article{wanyu2024_review,
+	year = 2024,
+	publisher = {Preprints},
+	author = {Wanyu Bian and Yokhesh Krishnasamy Tamilselvam},
+	title = {A Review of Optimization-Based Deep Learning Models for {MRI} Reconstruction},
+}
+
+@misc{wanyu2024_review2,
+      title={A Review of Electromagnetic Elimination Methods for low-field portable MRI scanner}, 
+      author={Wanyu Bian},
+      year={2024},
+}
+
 @inproceedings{yunming2022,
 author = {Xiao, Yunming and Varvello, Matteo},
 title = {{FIAT}: frictionless authentication of {IoT} traffic},
@@ -2892,3 +2918,35 @@ @misc{fan2024optimized
       archivePrefix={arXiv},
       primaryClass={quant-ph}
 }
+
+@misc{ni2024timeseries,
+    title = {Time Series Modeling for Heart Rate Prediction: From {ARIMA} to Transformers}, 
+    author = {Haowei Ni and Shuchen Meng and Xieming Geng and Panfeng Li and Zhuoying Li and Xupeng Chen and Xiaotong Wang and Shiyao Zhang},
+    year = {2024},
+}
+
+@misc{zhou2024reconstruction,
+    title = {Evaluating Modern Approaches in 3D Scene Reconstruction: {NeRF} vs Gaussian-Based Methods}, 
+    author = {Yiming Zhou and Zixuan Zeng and Andi Chen and Xiaofan Zhou and Haowei Ni and Shiyao Zhang and Panfeng Li and Liangxi Liu and Mengyao Zheng and Xupeng Chen},
+    year = {2024},
+}
+
+@misc{ni2024earnings,
+    title = {Harnessing Earnings Reports for Stock Predictions: A {QLoRA-Enhanced LLM} Approach},
+    author = {Haowei Ni and Shuchen Meng and Xupeng Chen and Ziqing Zhao and Andi Chen and Panfeng Li and Shiyao Zhang and Qifu Yin and Yuanqing Wang and Yuxi Chan},
+    year = 2024,
+}
+
+@inproceedings{xiaolong,
+author = {Ma, Xiaolong and Yan, Feng and Yang, Lei and Foster, Ian and Papka, Michael E. and Liu, Zhengchun and Kettimuthu, Rajkumar},
+title = {MalleTrain: Deep Neural Networks Training on Unfillable Supercomputer Nodes},
+year = {2024},
+booktitle = {ACM/SPEC International Conference on Performance Engineering},
+}
+
+@article{xiaolong2023,
+author = {Zhang, Jingyuan and Wang, Ao and Ma, Xiaolong and Carver, Benjamin and Newman, Nicholas John and Anwar, Ali and Rupprecht, Lukas and Tarasov, Vasily and Skourtis, Dimitrios and Yan, Feng and Cheng, Yue},
+title = {InfiniStore: Elastic Serverless Cloud Storage},
+year = {2023},
+journal = {Proc. VLDB Endow.},
+}

chapters/ipsn/appendix.tex

@@ -1,5 +1,8 @@
-\chapter{Appendix}
-\section{Deduction of Lemma~\ref{lem:p}}
+\section*{\textbf{Appendix}}
+\addcontentsline{toc}{chapter}{Appendix}
+
+% \chapter{Appendix}
+% \section{Deduction of Lemma~\ref{lem:p}}
 \label{appen:ipsn}
 
 Use $S$ number of sensors to determine the power for the hypothesis at location $\lstar$, such that the hypothesis has the maximum probability.

chapters/wowmom-pmc/related.tex

@@ -77,8 +77,9 @@ \section{Related Work}
 Machine learning techniques have empowered many applications.
 Studies have shown that image topology information can be leveraged to improve the performance of generative adversarial networks~\cite{fan2020topogan},
 and breast cancer treatment response biomarker~\cite{fan2021topotxr}.
-Novel meta-learning algorithms are developed for generalizable magnetic resonance imaging reconstruction~\cite{wanyu_thesis}.
+Novel meta-learning algorithms and diffusion models are developed for generalizable magnetic resonance imaging reconstruction~\cite{wanyu_thesis,wanyu2024_2,wanyu2023}.
 RELAX-MORE~\cite{wanyu2024} leverages self-supervised learning techniques to achieve out-performing state-of-the-art on less qMRI training data.
+See~\cite{wanyu2024_review,wanyu2024_review2} for reviews of optimization-based deep learning models for MRI Reconstruction.
 XGBoost is great at capturing the upward trend using the portfolio features constructed by PolyModel theory~\cite{siqiao2023} 
 and deep learning-based techniques have been shown to further enhance portfolio construction~\cite{siqiao2024}.
 Deep reinforcement learning can be used to minimize battery energy storage cost~\cite{binhuang2023grid} 
@@ -118,7 +119,8 @@ \section{Related Work}
 A novel time-domain self-restoration coding scheme~\cite{yifan2019} is proposed to enable efficient screen-camera communication. 
 OptML~\cite{yifan2019mobi} uses neural network to enable fast and efficient cross band channel prediction.
 ~\cite{huang2023mental} uses natural language processing techniques~\cite{huang2023instance} to understand the well-being change (anxiety, stress, loneliness) across age and gender during the COVID-19.
-
+To leverage idle supercomputer~\cite{xiaolong2023} nodes, ~\cite{xiaolong} introduces malleTrain to fit gaps in schedules for training deep neural networks without model information.
+Various machine learning methods have shown applications in 3D scene reconstruction~\cite{zhou2024reconstruction}, heart rate prediction~\cite{ni2024timeseries}, and stock prediction~\cite{ni2024earnings}.
 
 \para{Mobile health sensing and edge computing.}
 RF sensing enables some important mobile health applications such as heart and respiratory rate monitoring~\cite{zongxing2022uwb,zongxing2022measure}. 

introduction.tex

@@ -1,4 +1,4 @@
-\chapter[\small{Introduction}]{Introduction}
+\chapter[Introduction]{Introduction}
 \label{chap:intro}
 
 \input{chapters/introduction/main}

ipsn.tex

@@ -1,4 +1,4 @@
-\chapter[\small{Efficient Localization of Multiple Intruders for Shared Spectrum System}]{Efficient Localization of Multiple Intruders for Shared Spectrum System}
+\chapter[Efficient Localization of Multiple Intruders for Shared Spectrum System]{Efficient Localization of Multiple Intruders for Shared Spectrum System}
 \label{chap:ipsn}
 
 

main.tex

@@ -1,19 +1,5 @@
-\documentclass[
-11pt, % The default document font size, options: 10pt, 11pt, 12pt
-oneside, % Two side (alternating margins) for binding by default, uncomment to switch to one side
-english, % ngerman for German
-singlespacing, % Single line spacing, alternatives: onehalfspacing or doublespacing
-% draft, % Uncomment to enable draft mode (no pictures, no links, overfull hboxes indicated)
-%nolistspacing, % If the document is onehalfspacing or doublespacing, uncomment this to set spacing in lists to single
-liststotoc, % Uncomment to add the list of figures/tables/etc to the table of contents
-%toctotoc, % Uncomment to add the main table of contents to the table of contents
-%parskip, % Uncomment to add space between paragraphs
-nohyperref, % Uncomment to not load the hyperref package
-headsepline, % Uncomment to get a line under the header
-%chapterinoneline, % Uncomment to place the chapter title next to the number on one line
-%consistentlayout, % Uncomment to change the layout of the declaration, abstract, and acknowledgments pages to match the default layout
-]{MastersDoctoralThesis} % The class file specifying the document structure
-
+\documentclass[12pt]{report}
+\usepackage[top=1in, bottom=1in, left=1.5in, right=1in]{geometry}
 
 \let\proof\relax
 \let\endproof\relax
@@ -32,6 +18,7 @@ \chapter*{Appendices}
 \counterwithin{table}{chapter}
 } 
 
+
 %----------------------------------------------------------------------------------------
 %	all packages are here
 %----------------------------------------------------------------------------------------
@@ -62,43 +49,19 @@ \chapter*{Appendices}
       \setlength{\leftmargin}{\labelwidth}%
       \setlength{\labelsep}{\biblabelsep}%
       \addtolength{\leftmargin}{\labelsep}%
-      \setlength{\itemsep}{\bibitemsep}%
+      \setlength{\bibitemsep}{\baselineskip}%
       \setlength{\parsep}{\bibparsep}}%
       \renewcommand*{\makelabel}[1]{\hss##1}}
   {\endlist}
   {\item}
 
-%----------------------------------------------------------------------------------------
-%	MARGIN SETTINGS
-%----------------------------------------------------------------------------------------
-\geometry{
-	paper=a4paper, % Change to letterpaper for US letter
-	inner=3cm, % Inner margin
-	outer=3cm, % Outer margin
-	bindingoffset=.5cm, % Binding offset
-	top=1.5cm, % Top margin
-	bottom=1.5cm, % Bottom margin
-  head=1.5cm,
-	%showframe, % Uncomment to show how the type block is set on the page
-}
-
-%----------------------------------------------------------------------------------------
-%	THESIS INFORMATION
-%----------------------------------------------------------------------------------------
-\thesistitle{Transmitter Localization and Optimizing Initial State in Classical/Quantum Sensor Networks} % Your thesis title, this is used in the title and abstract, print it elsewhere with \ttitle
-\author{Caitao Zhan} % Your name, this is used in the title page and abstract, print it elsewhere with \authorname
-
-\AtBeginDocument{
-  \hypersetup{pdftitle=\ttitle} % Set the PDF's title to your title
-  \hypersetup{pdfauthor=\authorname} % Set the PDF's author to your name
-}
 
 \begin{document}
 
 %----------------------------------------------------------------------------------------
 %	TITLE PAGE
 %----------------------------------------------------------------------------------------
-\frontmatter % Use roman page numbering style (i, ii, iii, iv...) for the pre-content pages
+% \frontmatter % Use roman page numbering style (i, ii, iii, iv...) for the pre-content pages
 \pagestyle{plain} % Default to the plain heading style until the thesis style is called for the body content
 \input{titlepage}
 
@@ -110,9 +73,15 @@ \chapter*{Appendices}
 %----------------------------------------------------------------------------------------
 %	LIST OF CONTENTS/FIGURES/TABLES PAGES
 %----------------------------------------------------------------------------------------
-\tableofcontents % Prints the main table of contents
-\listoffigures % Prints the list of figures
-\listoftables % Prints the list of tables
+\tableofcontents
+
+\phantomsection
+\addcontentsline{toc}{chapter}{\listfigurename}
+\listoffigures
+
+\phantomsection
+\addcontentsline{toc}{chapter}{\listtablename}
+\listoftables
 
 %----------------------------------------------------------------------------------------
 %	ACKNOWLEDGEMENTS
@@ -127,14 +96,16 @@ \chapter*{Appendices}
 %----------------------------------------------------------------------------------------
 %	THESIS CHAPTERS. ipsn, wowmom, pmc, qce, tqc, tqe are either conference or journal names
 %----------------------------------------------------------------------------------------
-\mainmatter % Begin numeric (1,2,3...) page numbering
-\pagestyle{thesis} % Return the page headers back to the "thesis" style
+\newpage
+\setcounter{page}{1}
+\pagenumbering{arabic}
+
 \include{introduction}
-\include{ipsn}
-\include{wowmom-pmc}
-\include{qce}
-\include{tqc}
-\include{tqe}
+% \include{ipsn}
+% \include{wowmom-pmc}
+% \include{qce}
+% \include{tqc}
+% \include{tqe}
 
 %----------------------------------------------------------------------------------------
 %	THESIS APPENDICES
@@ -145,6 +116,11 @@ \chapter*{Appendices}
 %----------------------------------------------------------------------------------------
 %	BIBLIOGRAPHY
 %----------------------------------------------------------------------------------------
+
+\phantomsection
+\addcontentsline{toc}{chapter}{Bibliography}
+
 \printbibliography
 
+
 \end{document}

package.tex

@@ -12,6 +12,7 @@
 \usepackage{array}
 \usepackage{balance}
 \let\bibhang\relax
+\usepackage[utf8]{inputenc} % Required for inputting international characters
 \usepackage[style=apa,backend=biber,citestyle=numeric]{biblatex}
 \usepackage{bm}
 \usepackage{booktabs} % For formal tables
@@ -28,7 +29,6 @@
 \usepackage[T1]{fontenc} % Output font encoding for international characters
 \usepackage{graphicx}
 \usepackage[hidelinks]{hyperref}
-\usepackage[utf8]{inputenc} % Required for inputting international characters
 \usepackage{listings}
 \usepackage{mathtools}
 \usepackage{multirow}
@@ -40,7 +40,6 @@
 \usepackage{spverbatim}
 \usepackage{siunitx}
 \usepackage{textcomp}
-\usepackage[colorinlistoftodos,prependcaption,textsize=small]{todonotes}
 \usepackage{xcolor}
 \usepackage{url}
 \usepackage{wrapfig}

paperlist.tex

@@ -1,14 +1,18 @@
-\chapter{Publications}
+\pagebreak
+
+\section*{\centerline{{\textbf{Publications}}}}
+
+\addcontentsline{toc}{chapter}{Publications}
 
 \subsection*{Papers Included in this Thesis}
 \begin{itemize}
-    \item \textbf{Caitao Zhan}, Himanshu Gupta, Arani Bhattacharya, Mohammad Ghaderibaneh, "Efficient Localization of Multiple Intruders in Shared Spectrum System," ACM/IEEE IPSN, Sydney, Australia, Apr. 2020.
+    \item \textbf{Caitao Zhan}, Himanshu Gupta, Arani Bhattacharya, Mohammad Ghaderibaneh, "Efficient Localization of Multiple Intruders in Shared Spectrum System," ACM/IEEE IPSN, Sydney, Australia, 2020.
 
-    \item \textbf{Caitao Zhan}, Mohammad Ghaderibaneh, Himanshu Gupta, "DeepMTL: Deep Learning Based Multiple Transmitter Localization," IEEE WoWMoM, Pisa, Italy, June. 2021. 
+    \item \textbf{Caitao Zhan}, Mohammad Ghaderibaneh, Himanshu Gupta, "DeepMTL: Deep Learning Based Multiple Transmitter Localization," IEEE WoWMoM, Pisa, Italy, 2021. 
 
     \item \textbf{Caitao Zhan}, Mohammad Ghaderibaneh, Himanshu Gupta, "DeepMTL Pro: Deep Learning Based Multiple Transmitter Localization and Power Estimation," Elsevier PMC, 2022.
 
-    \item \textbf{Caitao Zhan}, Himanshu Gupta, "Quantum Sensor Network Algorithms For Transmitter Localization," IEEE QCE, Bellevue, WA, Sept. 2023
+    \item \textbf{Caitao Zhan}, Himanshu Gupta, "Quantum Sensor Network Algorithms For Transmitter Localization," IEEE QCE, Bellevue, WA, 2023
 
     \item \textbf{Caitao Zhan}, Himanshu Gupta, Mark Hillery, "Optimizing Initial State of Detector Sensors in Quantum Sensor Networks," ACM TQC, 2024.
 
@@ -17,11 +21,11 @@ \subsection*{Papers Included in this Thesis}
 
 \subsection*{Papers Not Included in this Thesis}
 \begin{itemize}
-    \item Arani Bhattacharya, \textbf{Caitao Zhan}, Himanshu Gupta, Samir R. Das, Petar M. Djuric, "Selection of Sensors for Efficient Transmitter Localization," IEEE INFOCOM 2020
+    \item Arani Bhattacharya, \textbf{Caitao Zhan}, Himanshu Gupta, Samir R. Das, Petar M. Djuric, "Selection of Sensors for Efficient Transmitter Localization," IEEE INFOCOM, 2020
 
-    \item Himanshu Gupta, Max Curran, \textbf{Caitao Zhan}, "Near-Optimal Multihop Scheduling in General Circuit-Switched Networks," ACM CoNEXT 2020
+    \item Himanshu Gupta, Max Curran, \textbf{Caitao Zhan}, "Near-Optimal Multihop Scheduling in General Circuit-Switched Networks," ACM CoNEXT, 2020
 
-    \item Arani Bhattacharya, \textbf{Caitao Zhan}, Abhishek Maji, Himanshu Gupta, Samir R. Das, Petar M. Djuric, "Selection of Sensors for Efficient Transmitter Localization," IEEE/ACM TON 2021.
+    \item Arani Bhattacharya, \textbf{Caitao Zhan}, Abhishek Maji, Himanshu Gupta, Samir R. Das, Petar M. Djuric, "Selection of Sensors for Efficient Transmitter Localization," IEEE/ACM TON, 2021.
 
     \item Mark Hillery, Himanshu Gupta, \textbf{Caitao Zhan}, "Discrete Outcome Quantum Sensor Networks," Physical Review A, 2023
 

qce.tex

@@ -1,4 +1,4 @@
-\chapter[\small{Quantum Sensor Network Algorithms for Transmitter Localization}]{Quantum Sensor Network Algorithms for Transmitter Localization}
+\chapter[Quantum Sensor Network Algorithms for Transmitter Localization]{Quantum Sensor Network Algorithms for Transmitter Localization}
 \label{chap:qce}
 
 \input{chapters/qce/abstract}