Electron transfer processes are investigated through conductance measurements of single molecules. Measurements are performed on metal-molecule-metal junctions using a modified scanning tunneling microscope technique. Through a series of experimental measurements, and accompanying theoretical models, the influence of the molecule on the measured current is explored. These explorations are presented in five separate chapters. In chapter two, the molecular orbitals of sp-hybridized carbon chains are discussed in detail. It is demonstrated that the molecular orbitals can assume an intriguing helical shape. In chapter three, the length-dependent conductance of sp²-hybridized carbon chains is investigated. Experiment and theory demonstrate that the conductance of odd-numbered chains is nearly uniform with length. In chapter four, a new theoretical scheme to calculate quantum interference is developed. Using this scheme, it is demonstrated that quantum interference yields the decay in conductance with length for molecular wires. In chapter five, current-voltage measurements of redox-active molecular clusters are shown to agree with a hopping transport model. In chapter six, a novel experimental setup is presented that can be used to investigate photoconductivity in single-molecule junctions. This thesis provides a broad, yet rigorous, survey of electron transfer processes in single-molecule junctions.

In the last two decades, significant strides have been made towards utilizing the scanning tunneling microscope (STM) as a reaction chemistry tool, in addition to its primary use as an imaging instrument. Built off the STM, the STM-break junction (STM-BJ) technique was developed specifically for the reliable and reproducible measurement of properties of a single molecule suspended between two electrodes. These advances are crucial to the fields of molecular electronics and single-molecule reactivity, the latter also relating back to traditional bulk chemistry. By intelligently designing experiments and systems to probe with the STM and STM-BJ, we can begin to understand chemical processes on a deeper level than ever before. Chapter 1 provides an overview of the recent work using the STM and STM-BJ to effect chemical transformations which involve the making and breaking of bonds. We contextualize this progress in terms of single-molecule manipulation and synthetic chemistry, to understand the implications and outlook of this field of study. Seminal surface-based reactions are discussed, in addition to reactions that occur in both solution and within the single molecule junction. Differences between STM and STM-BJ capabilities and limitations are detailed, and the challenges of translating these fundamental experiments into functional reactions are addressed. Chapter 2 describes using the STM-BJ to study the binding of aryl iodides between gold electrodes. Important details regarding these binding modes, which were previously incompletely understood, are revealed via concrete experimental evidence. Our data suggests that this system, which is synthetically accessible, holds promise for forming the sought-after and highly conducting covalent gold-carbon bonds in situ and can be modulated with applied bias. Chapter 3 builds upon the knowledge gained in Chapter 2, and focuses on the reactivity of aryl iodides in the junction. We demonstrate a new in situ reaction of an Ullmann coupling, or dimerization, of various biphenyl iodides. By strategically designing the molecules studied, we are also able to gain mechanistic insight into this process, which in the bulk still remains debated, as well as demonstrate a cross-coupling reaction. This project is ongoing as of the submission of this dissertation, so other findings and continuing experiments are included. Chapter 4 transitions towards a different type of binder to gold, the cyclopropenylidene-based carbene. These amino-functionalized carbenes prove to be stronger linkers than N-heterocyclic carbenes, which are known binders to gold. Using a variety of surface analysis, imaging, and computational techniques, we explore the binding geometries and energies of cyclopropenylidenes, expanding the scope of carbene surface modifiers. Chapter 5 summarizes this body of PhD research, suggests directions for future work, and concludes the dissertation. These works explore the binding and reactivity of molecules on gold surfaces and within the single molecule junction, improving upon the understanding of this newly burgeoning field. This thesis seeks to encourage future work on these and related systems, to continue refining our comprehension of both junction and bulk reaction chemistry processes.

The scanning tunneling microscope-break junction (STM-BJ) technique is an ideal platform for single-molecule studies related to the design of molecular electronics. STM-BJ is particularly advantageous for molecular junctions for characterizing key properties of molecular conductance as well as many other related properties, which contribute to a growing understand of the mechanisms of electron transport on the single-molecular level. Prior STM-BJ studies have generally focused on simple systems with only one type of molecule forming one type of junction. However, some systems (such as those involve in-situ chemical reactions) are intrinsically complex with multiple molecules and junction structures that can be accessed in the experiment. The analysis of such complex systems requires more powerful analytical methods that can distinguish different junction types. Machine learning has been demonstrated as a powerful tool for the analysis of such large datasets. In this work, we develop tools to analyze, with a high-accuracy, individual junction characteristics using machine learning to classify the data and provide mechanistic understanding of the STM-BJ method.We start our work by investigating the imidazolyl linker. Imidazole is a five-member aromatic heterocycle with two nitrogen atoms, in which its pyridinic nitrogen can bind to gold electrodes. We study a series of alkanes of different lengths with two terminal 1-imidazolyl linker groups. While the intramolecular transmission across these molecules gives the pyridinic double peak, we find and prove that π-stacking between two imidazole rings is strong enough to form a third intermolecular conductance peak with higher conductance. This behavior is a good example where multiple types of junction are formed with just one molecule. Then, we focus on developing a trace-wise classification method using deep learning to resolve the data from such complicated systems of special molecules, mixture solutions, or in-situ¬ chemical reactions. Compared to existing methods, ours reduces the loss of information during the data preprocessing and demonstrates better performance by employing a convolutional neural network structure with larger capacity. Benchmarking with several commercially available molecules, we show that our model reaches up to 97% accuracy and outruns all the existing methods significantly. Nevertheless, we also demonstrate that our model can retain high accuracy when two essential parameters, the average conductance and the length of the molecular conductance plateau, are removed. Importantly, this capability has not been seen for the other algorithm designs. We then apply our method to an in-situ chemical reaction to realize the monitoring of the reaction process. This excellent performance of our model on the trace classification task demonstrates the capability of machine learning methods on STM-BJ data analysis. Finally, we also explore the feasibility of utilizing the machine learning toolkit in other types of analysis on molecular junctions. We study the relaxation of gold electrodes after junction rupture (termed “snapback”) and its relation to pre-rupture evolution of gold contact. With the assistance of machine learning tools, we reveal that while the snapback can be well explained by this evolution history, the length of molecular conductance plateau is not related to either the snapback or this history. We also discover that the junction formation probability for short molecules is negatively correlated to the extension of single-atomic gold contact. Based on these findings, we conclude that the major mechanism for a molecular junction formation involves a molecule bridging across the junction prior to the rupture of the gold contact, in contrast to the previously-accepted picture where the molecule is captured immediately following the rupture. As a conclusion, we apply machine learning/deep learning on STM-BJ data analysis by developing a model to efficiently classify STM-BJ traces with high accuracy, which is important for measuring complex systems containing multiple species. We also demonstrate the feasibility of analyzing junction formation mechanisms with the help of machine learning tools.

京都大学 / 0048 / 新制・課程博士 / 博士(工学) / 甲第19318号 / 工博第4115号 / 新制||工||1634(附属図書館) / 32320 / 京都大学大学院工学研究科合成・生物化学専攻 / (主査)教授 松田 建児, 教授 北川 進, 教授 杉野目 道紀 / 学位規則第4条第1項該当 / Doctor of Philosophy (Engineering) / Kyoto University / DGAM

付記する学位プログラム名: 充実した健康長寿社会を築く総合医療開発リーダー育成プログラム / 京都大学 / 0048 / 新制・課程博士 / 博士(工学) / 甲第21798号 / 工博第4615号 / 新制||工||1719(附属図書館) / 京都大学大学院工学研究科合成・生物化学専攻 / (主査)教授 松田 建児, 教授 杉野目 道紀, 教授 浜地 格 / 学位規則第4条第1項該当 / Doctor of Philosophy (Engineering) / Kyoto University / DGAM

This thesis investigates the unique properties of 2D devices such as twisted semiconducting bilayers and a-RuCl₃ heterostructures employing scanning tunneling microscopy (STM) and spectroscopy (STS) probes. The research presented here sheds light on the vast opportunities that 2D materials provide in condensed matter systems as well as future device applications. Among 2D materials, transition metal dichalcogenide (TMD) heterobilayers provide a promising platform to study many quantum phenomena such as excitonic states due to their tunability of band gap. In addition, TMDs are excellent candidates to achieve localized states and carrier confinement, crucial for single photon emitters used in quantum computation and information. We begin this thesis with a brief overview of STM/STS and utilizing these techniques on 2D materials in the first and second chapters.The third chapter of this work investigates the twisted bilayer of WSe₂ and MoSe₂ in the H-stacking configuration using STM/STS which was previously challenging to measure. The spectroscopic results obtained from the heterobilayer indicate that a combination of structural rippling and electronic coupling generates unexpectedly large \moire potentials, in the range of several hundred meV. Our analysis reveals that the \moire structure and internal strain, rather than interlayer coupling, are the main factors of the moire potential. Large moire potentials lead to deeply trapped carriers such as electron-hole pairs, so-called excitons. Our findings open new routes toward investigating excitonic states in twisted TMDs. In the next chapter, we investigate the ultralocalized states of twisted WSe₂/MoSe₂ nanobubbles. Mechanical and electrical nanostructurings are expected to modify the band properties of transition metal dichalcogenides at the nanoscale. To visualize this effect, we use STM and near-field photoluminescence to examine the electronic and optical properties of nanobubbles in the semiconducting heterostructures. Our findings reveal a significant change in the local bandgap at the nanobubble, with a continuous evolution towards the edge of the bubble. Moreover, at the edge of the nanobubble, we show the formation of in gap bound states. A continuous redshift of the interlayer exciton on entering the bubble is also detected by the nano-PL. Using self-consistent Schrodinger-Poisson simulations, we further show that strong doping in the bubble region leading to band bending is responsible for achieving ultralocalized states. Overall, this work demonstrates the potential of 2D TMDs for developing well-controlled optical emitters for quantum technologies and photonics. We next turn to the effect of the electric field in band gap tuning of WSe₂/WS₂ heterobilayer. The tunability of band gap is a crucial element in device engineering to achieve quantum emitters. The electrostatic gate generates doping and an electric field giving access to continuous tunability, higher doping level, and integration capability to nanoelectronic devices. We employ scanning tunneling microscopy (STM) and spectroscopy (STS) to probe the band properties of twisted heterobilayer with high energy and spatial resolution. We observe continuous band gap tuning up to several hundreds of meV change by sweeping the back gate. We introduced a capacitance model to take into account the finite tip size leading to an enhanced electric field. The result of our calculation captures well the band gap change observed by STS measurements. Our study offers a new route toward creating highly tunable semiconductors for carrier confinement in quantum technology. In the next chapters, we focus on a-RuCl₃ heterointerfaces. We first explore the nanobubble of graphene/a-RuCl3 to create sharp p-n junctions. The ability to create sharp lateral p-n junctions is a critical requirement for the observation of numerous quantum phenomena. To accomplish this, we used a charge-transfer based heterostructure consisting of graphene and a-RuCl₃ to create nanoscale lateral p-n junctions in the vicinity of nanobubbles. Our approach relied on a combination of scanning tunneling microscopy (STM) and spectroscopy (STS), as well as scattering-type scanning near-field optical microscopy (s-SNOM), which allowed us to examine both the electronic and optical responses of these nanobubble p-n junctions. Our results showed a massive doping variation across the nanobubble with a band offset of 0.6 eV. Further, we observe the formation of an abrupt junction along nanobubble boundaries with an exceptionally sharp lateral width (<3 nm). This is one order of magnitude smaller length scale than previous lithographic methods. Our work paves the way toward device engineering via interfacial charge transfer in graphene and other low-density 2D materials. In chapter 7, we describe the use of low-temperature scanning tunneling microscopy (STM) measurements to observe the \moire pattern in graphene/a-RuCl3 heterostructure to validate the InterMatch method. This method is effective in predicting the charge transfer, strain, and stability of an interface. The InterMatch method was applied to moire patterns of graphene/a-RuCl3 to predict the stable interface structure. STM topographs show three regions with distinct moire wavelengths due to atomic reconstructions. Using the InterMatch method, we perform a comprehensive mapping of the space of superlattice configurations and we identify the energetically favorable superlattices that occur in a small range of twist angles. This range is consistent with the STM results. Moreover, the spectra on these regions exhibit strong resonances with the spacing between resonances following the expectation from Landau levels on a Dirac spectrum due to strain and doping. The results of our scanning tunneling microscopy (STM) measurements confirm that the InterMatch method is effective in predicting the charge transfer and stability of interfaces between materials. We next investigate WSe₂/a-RuCl₃ heterostructure through a multi-faceted approach. Our exploration encompassed diverse techniques such as STM, and optical measurements. We detect a significant charge transfer between the two layers by STM measurements, leading to a shift in the Fermi level towards the valence band of WSe₂. Our findings are supported by optical measurements and DFT calculations, which confirm the p-doped WSe₂ observed through STM. The results of this work highlight a-RuCl₃ potential for contact engineering of TMDs and unlocking their functionalities for the next generation optoelectronic devices. In the last chapter of this thesis, I provide a brief conclusion as well as a few future directions and insights for investigating 2D materials.

No description available.

Thesis advisor: Ilija Zeljkovic / The splendid world of quantum materials is being unveiled in modern condensed matter physics, thanks to the advanced material synthesis methods, refined experimental probing techniques and deeper theoretical understanding. Unconventional superconductivity and topological phenomena are two of the main themes in this realm. Many outstanding problems are waiting to be solved and there is also a great potential in future technological applications. Among many routes of studying the quantum materials, creating thin film structures provides a special opportunity to learn the physical properties in low dimensions, to explore the effect of substrate and strain and to make novel electronic devices.In this thesis, I will present successful molecular beam epitaxy thin film synthesis of: (1) unconventional superconductor FeSe, (2) topological insulator Bi2Se3 doped with magnetic Fe atoms and (3) kagome structure magnets FeSn and Fe3Sn2. For (1), I will describe the finding of a dislocation network, its impact on the spatially-modulated strain field and its interesting interplay with the spontaneous symmetry-broken nematic phase. This is a new finding in the FeSe/SrTiO3 heterostructure and also provides fresh insights in the understandings of nematicity. For (2), I will show how we cross-check the doping ratio using different characterization techniques. Our observation indicates the possible formation of Fe clusters or impurity phases and sets the foundation for future synthesis of similar structures. For (3), I will demonstrate the novel selective synthesis of FexSny thin films. A plethora of spectral features were found in Fe3Sn2, implying a link with the Weyl physics. The FexSny thin films can potentially be a platform for the exploration of correlated, topological quantum phases in low dimensions. / Thesis (PhD) — Boston College, 2022. / Submitted to: Boston College. Graduate School of Arts and Sciences. / Discipline: Physics.

The precise control of the resonance frequency of plasmonic nanostructures is critical and depends on the size, composition, shape, and dielectric nature of the environment. The ability to control the shape and size of nanomaterials acutely depends on the fabrication technique and material design. We used a cheap and scalable method known as nanosphere lithography (NSL) to fabricate plasmonic nano-prism (NP) on glass and indium tin oxide substrate (ITO). The methods involve substrate hydrophilicity treatment, polystyrene nanosphere masking, metal deposition, and mask removal. The array and specific morphology of the fabricated NP was established using scanning electron microscope (SEM) and atomic force microscope (AFM). Finally, we used UVVis spectroscopy to determine the plasmonic resonance frequencies of fabricated NP on different substrates. The results reported herein have potential applications in surface-enhanced Raman spectroscopy (SERS), and biosensing. We also used scanning tunneling microscope to obtain high spatial resolution images of supramolecular trigrams.

This thesis explores the mechanics of single molecule machines on a surface, aiming to understand the principles underlying synthetic single molecular machines. The study utilizes scanning tunneling microscopy (STM) at ultra-low temperatures and high vacuum conditions to investigate individual small molecules adsorbed on a substrate. In the first part, the transmission of rotation between single molecule-gears is examined, employing a star-shaped pentaphenylcyclopentadiene molecule manipulated by STM. The second part focuses on a zwitterionic and chiral molecule's dual functionality as a molecule-rotor or a molecule-vehicle (nanocar), with motion driven by tunneling electrons. The third part explores the origin of unidirectional rotation in a single molecule-rotor, analyzing the effects of thermal and electronic excitations on rotation dynamics. Overall, this work contributes to the fundamental understanding of nanoscale mechanical molecular devices and their potential applications.