subject:( assembly maps)

University of Illinois – Urbana-Champaign

1. Long, Andrew Wilson. Inverse design of self-assembling colloids via landscape engineering.

Degree: PhD, Materials Science & Engr, 2017, University of Illinois – Urbana-Champaign

► This dissertation applies machine learning to the study of colloidal self-assembly to provide insights on the microscopic mechanisms driving assembly phenomena and drive towards a… (more)

▼ This dissertation applies machine learning to the study of colloidal self-assembly to provide insights on the microscopic mechanisms driving assembly phenomena and drive towards a design framework capable of rationally manipulating the free energy landscape for self-assembly to derive building blocks that preferentially form into a target aggregate structure. The methodologies derived within are applicable to a wide class of self-assembly systems, both simulated and experimental, enabling a new frontier in the computer-aided design of self-assembling materials. The first portion of this dissertation focuses on the development of the many-body diffusion map and its application to the study of self-assembly. Diffusion map dimensionality reduction has shown great promise in the study of the low-dimensional folding landscapes inherent to protein folding. We extend this technique to handle multi-body systems via a graph-based distance measure that treats aggregate structure as a bonding network. In comparison to other techniques that utilize pathway engineering or heuristics, diffusion mapping of self-assembly systems is shown to systematically infer the low-dimensional manifold on which self-assembly occurs, detailing the structural pathway information and providing a framework for computation of both thermodynamic (what will form) and kinetic (how will it form) properties in a unified framework. We study this machine learning algorithm on the self-assembly and self-organization of three systems. In the first study we apply many-body diffusion maps to a double ring patchy colloid model shown to form discrete polyhedral aggregates by varying the angles of the different patchy rings. Our method is able to validate previous studies showing that self-assembly of icosahedral aggregates occurs along two competing assembly-pathways, and we use this self-assembly landscape to suggest patch-interaction design criteria for robust icosahedral assembly. In a second study, we apply our many-body diffusion map approach to particle-tracking experiments of Janus colloid self-assembly. This was to our knowledge the first attempt at machine learning collective order parameters and deriving assembly landscapes directly from experimental particle tracking data. Here we demonstrate the ability of our many-body diffusion map to provide insights on the affect experimental controls have on the self-assembly process, proving in line with our physical interpretation and extending to predict experimental systems to improve the yield or specificity of a targeted region of the self-assembly space. In our third study, we apply the diffusion map to the self-organization of a digital colloid, a discrete colloidal cluster capable of storing information by adopting certain configurations. Here we extract the important kinetic and thermodynamic information driving transitions between colloidal bit states, deriving the engineering design tradeoff between information stability and the energy required to write information. The second portion of… Advisors/Committee Members: Ferguson, Andrew L (advisor), Ferguson, Andrew L (Committee Chair), Schweizer, Kenneth S (committee member), DeVille, Lee (committee member), Evans, Christopher M (committee member).

Subjects/Keywords: Self-assembly; Machine learning; Dimensionality reduction; Materials design; Diffusion maps

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APA (6^th Edition):

Long, A. W. (2017). Inverse design of self-assembling colloids via landscape engineering. (Doctoral Dissertation). University of Illinois – Urbana-Champaign. Retrieved from http://hdl.handle.net/2142/99169

Chicago Manual of Style (16^th Edition):

Long, Andrew Wilson. “Inverse design of self-assembling colloids via landscape engineering.” 2017. Doctoral Dissertation, University of Illinois – Urbana-Champaign. Accessed January 19, 2021. http://hdl.handle.net/2142/99169.

MLA Handbook (7^th Edition):

Long, Andrew Wilson. “Inverse design of self-assembling colloids via landscape engineering.” 2017. Web. 19 Jan 2021.

Vancouver:

Long AW. Inverse design of self-assembling colloids via landscape engineering. [Internet] [Doctoral dissertation]. University of Illinois – Urbana-Champaign; 2017. [cited 2021 Jan 19]. Available from: http://hdl.handle.net/2142/99169.

Council of Science Editors:

Long AW. Inverse design of self-assembling colloids via landscape engineering. [Doctoral Dissertation]. University of Illinois – Urbana-Champaign; 2017. Available from: http://hdl.handle.net/2142/99169

2. Chhatpar, Siddharth R. Localization for Robotic Assemblies with Position Uncertainty.

Degree: PhD, Mechanical Engineering, 2006, Case Western Reserve University School of Graduate Studies

URL: http://rave.ohiolink.edu/etdc/view?acc_num=case1133555909

► This dissertation deals with the class of robotic assemblies where position uncertainty far exceeds assembly clearance, and visual assistance is not available to resolve the… (more)

▼ This dissertation deals with the class of robotic assemblies where position uncertainty far exceeds assembly clearance, and visual assistance is not available to resolve the uncertainty. Our research is motivated by actual assemblies from vehicular transmissions that fall under this class. For this class of assemblies, the focus shifts from the dynamics of the assembly to the problem of searching for part alignment. A novel idea is introduced to transform the search for part alignment into one of localizing the peg-hole misalignment on the hyper-surface formed in the peg-hole contact configuration space (C-space). This idea is developed into an intelligent localization strategy for resolving the uncertainty in the relative configuration of parts. The strategy is to explore the assembly contact C-space and match observations to a pre-acquired map of the C-space. The implementation of our localization strategy is described using both analytical and sampled maps of the contact C-space. Thus, one can either model the contact C-space using equations of the three-dimensional volumetric intersections of the mating parts, or sample it using a robot or CAD model. However, a sampled map does not provide a complete representation of the continuous contact C-space. Hence, the concepts of assembly sufficiency, goal region, and approximate localization are introduced to help in localizing sufficiently for assembly. With increasing dimensionality of the assembly uncertainty and small assembly clearances, the computational load becomes large and uneven over the localization period. An algorithm, termed the cell approach, is developed to implement the localization strategy in stages of increasing resolution, thus distributing the computational load more evenly. To make the localization strategy more robust, the application of particle filtering for robotic assemblies with position uncertainty was pioneered in this dissertation. Particle filtering is a probabilistic scheme that maintains a set of weighted particles, where each particle represents an estimate of the relative peg-hole configuration; it can handle errors in actuation and observation, and also errors in mapping. Moreover, the number of particles can be adjusted to accommodate the computational resources available. The ideas presented in this dissertation were validated with mathematical analyses, computer simulations, and actual robotic assemblies. Advisors/Committee Members: Branicky, Michael (Advisor).

Subjects/Keywords: Localization; Robotic Assembly; Particle Filter; Configuration Space; Sampled Maps

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APA · Chicago · MLA · Vancouver · CSE | Export to Zotero / EndNote / Reference Manager

APA (6^th Edition):

Chhatpar, S. R. (2006). Localization for Robotic Assemblies with Position Uncertainty. (Doctoral Dissertation). Case Western Reserve University School of Graduate Studies. Retrieved from http://rave.ohiolink.edu/etdc/view?acc_num=case1133555909

Chicago Manual of Style (16^th Edition):

Chhatpar, Siddharth R. “Localization for Robotic Assemblies with Position Uncertainty.” 2006. Doctoral Dissertation, Case Western Reserve University School of Graduate Studies. Accessed January 19, 2021. http://rave.ohiolink.edu/etdc/view?acc_num=case1133555909.

MLA Handbook (7^th Edition):

Chhatpar, Siddharth R. “Localization for Robotic Assemblies with Position Uncertainty.” 2006. Web. 19 Jan 2021.

Vancouver:

Chhatpar SR. Localization for Robotic Assemblies with Position Uncertainty. [Internet] [Doctoral dissertation]. Case Western Reserve University School of Graduate Studies; 2006. [cited 2021 Jan 19]. Available from: http://rave.ohiolink.edu/etdc/view?acc_num=case1133555909.

Council of Science Editors:

Chhatpar SR. Localization for Robotic Assemblies with Position Uncertainty. [Doctoral Dissertation]. Case Western Reserve University School of Graduate Studies; 2006. Available from: http://rave.ohiolink.edu/etdc/view?acc_num=case1133555909

3. Healy, John. Fuzzy k-mers and their application to comparative genome assembly .

Degree: 2013, National University of Ireland – Galway

URL: http://hdl.handle.net/10379/4218

► The application of k-mer matching to problems in the field of bioinformatics is long established, with k-mer techniques underpinning standard heuristic approaches to sequence alignment… (more)

Subjects/Keywords: Fuzzy hash maps; Comparative assembly; Fuzzy k-mers; Engineering & Informatics

…assembly [23, 27]. Hash-based dictionary structures, such as hash tables and hash maps… …heuristic approaches to sequence alignment and genome assembly. Despite their broad application… …and comparative assembly. By combining the speed of hashing with the sensitivity of dynamic… …assembly. x Chapter 1 Introduction and Research Hypothesis “There are known knowns - there… …10] argue that the objective of many de novo assembly projects is primarily to create…

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APA (6^th Edition):

Healy, J. (2013). Fuzzy k-mers and their application to comparative genome assembly . (Thesis). National University of Ireland – Galway. Retrieved from http://hdl.handle.net/10379/4218

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Chicago Manual of Style (16^th Edition):

Healy, John. “Fuzzy k-mers and their application to comparative genome assembly .” 2013. Thesis, National University of Ireland – Galway. Accessed January 19, 2021. http://hdl.handle.net/10379/4218.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

MLA Handbook (7^th Edition):

Healy, John. “Fuzzy k-mers and their application to comparative genome assembly .” 2013. Web. 19 Jan 2021.

Vancouver:

Healy J. Fuzzy k-mers and their application to comparative genome assembly . [Internet] [Thesis]. National University of Ireland – Galway; 2013. [cited 2021 Jan 19]. Available from: http://hdl.handle.net/10379/4218.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Council of Science Editors:

Healy J. Fuzzy k-mers and their application to comparative genome assembly . [Thesis]. National University of Ireland – Galway; 2013. Available from: http://hdl.handle.net/10379/4218

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

4. Takata, Doman. A Loop Group Equivariant Analytic Index Theory for Infinite-dimensional Manifolds .

Degree: 2018, Kyoto University

URL: http://hdl.handle.net/2433/232217

Subjects/Keywords: infinite-dimensional manifolds; loop groups; Dirac operators; assembly maps; KK-theory; index theory

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APA · Chicago · MLA · Vancouver · CSE | Export to Zotero / EndNote / Reference Manager

APA (6^th Edition):

Takata, D. (2018). A Loop Group Equivariant Analytic Index Theory for Infinite-dimensional Manifolds . (Thesis). Kyoto University. Retrieved from http://hdl.handle.net/2433/232217

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Chicago Manual of Style (16^th Edition):

Takata, Doman. “A Loop Group Equivariant Analytic Index Theory for Infinite-dimensional Manifolds .” 2018. Thesis, Kyoto University. Accessed January 19, 2021. http://hdl.handle.net/2433/232217.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

MLA Handbook (7^th Edition):

Takata, Doman. “A Loop Group Equivariant Analytic Index Theory for Infinite-dimensional Manifolds .” 2018. Web. 19 Jan 2021.

Vancouver:

Takata D. A Loop Group Equivariant Analytic Index Theory for Infinite-dimensional Manifolds . [Internet] [Thesis]. Kyoto University; 2018. [cited 2021 Jan 19]. Available from: http://hdl.handle.net/2433/232217.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Council of Science Editors:

Takata D. A Loop Group Equivariant Analytic Index Theory for Infinite-dimensional Manifolds . [Thesis]. Kyoto University; 2018. Available from: http://hdl.handle.net/2433/232217

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Queensland University of Technology

5. Hişil, Hüseyin. Elliptic curves, group law, and efficient computation.

Degree: 2010, Queensland University of Technology

URL: https://eprints.qut.edu.au/33233/

► This thesis is about the derivation of the addition law on an arbitrary elliptic curve and efficiently adding points on this elliptic curve using the… (more)

▼ This thesis is about the derivation of the addition law on an arbitrary elliptic curve and efficiently adding points on this elliptic curve using the derived addition law. The outcomes of this research guarantee practical speedups in higher level operations which depend on point additions. In particular, the contributions immediately find applications in cryptology. Mastered by the 19th century mathematicians, the study of the theory of elliptic curves has been active for decades. Elliptic curves over finite fields made their way into public key cryptography in late 1980’s with independent proposals by Miller [Mil86] and Koblitz [Kob87]. Elliptic Curve Cryptography (ECC), following Miller’s and Koblitz’s proposals, employs the group of rational points on an elliptic curve in building discrete logarithm based public key cryptosystems. Starting from late 1990’s, the emergence of the ECC market has boosted the research in computational aspects of elliptic curves. This thesis falls into this same area of research where the main aim is to speed up the additions of rational points on an arbitrary elliptic curve (over a field of large characteristic). The outcomes of this work can be used to speed up applications which are based on elliptic curves, including cryptographic applications in ECC. The aforementioned goals of this thesis are achieved in five main steps. As the first step, this thesis brings together several algebraic tools in order to derive the unique group law of an elliptic curve. This step also includes an investigation of recent computer algebra packages relating to their capabilities. Although the group law is unique, its evaluation can be performed using abundant (in fact infinitely many) formulae. As the second step, this thesis progresses the finding of the best formulae for efficient addition of points. In the third step, the group law is stated explicitly by handling all possible summands. The fourth step presents the algorithms to be used for efficient point additions. In the fifth and final step, optimized software implementations of the proposed algorithms are presented in order to show that theoretical speedups of step four can be practically obtained. In each of the five steps, this thesis focuses on five forms of elliptic curves over finite fields of large characteristic. A list of these forms and their defining equations are given as follows: (a) Short Weierstrass form, y2 = x3 + ax + b, (b) Extended Jacobi quartic form, y2 = dx4 + 2ax2 + 1, (c) Twisted Hessian form, ax3 + y3 + 1 = dxy, (d) Twisted Edwards form, ax2 + y2 = 1 + dx2y2, (e) Twisted Jacobi intersection form, bs2 + c2 = 1, as2 + d2 = 1, These forms are the most promising candidates for efficient computations and thus considered in this work. Nevertheless, the methods employed in this thesis are capable of handling arbitrary elliptic curves. From a high level point of view, the following outcomes are achieved in this thesis. - Related literature results are brought together and further revisited. For most of the cases several missed…

Subjects/Keywords: Elliptic curve, group law, point addition, point doubling, projective coordinates, rational maps, birational equivalence, riemann-roch theorem, rational simplification, ansi c language, x86 assembly language, scalar multiplication; cryptographic pairing computation, elliptic curve cryptography

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APA · Chicago · MLA · Vancouver · CSE | Export to Zotero / EndNote / Reference Manager

APA (6^th Edition):

Hişil, H. (2010). Elliptic curves, group law, and efficient computation. (Thesis). Queensland University of Technology. Retrieved from https://eprints.qut.edu.au/33233/

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Chicago Manual of Style (16^th Edition):

Hişil, Hüseyin. “Elliptic curves, group law, and efficient computation.” 2010. Thesis, Queensland University of Technology. Accessed January 19, 2021. https://eprints.qut.edu.au/33233/.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

MLA Handbook (7^th Edition):

Hişil, Hüseyin. “Elliptic curves, group law, and efficient computation.” 2010. Web. 19 Jan 2021.

Vancouver:

Hişil H. Elliptic curves, group law, and efficient computation. [Internet] [Thesis]. Queensland University of Technology; 2010. [cited 2021 Jan 19]. Available from: https://eprints.qut.edu.au/33233/.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Council of Science Editors:

Hişil H. Elliptic curves, group law, and efficient computation. [Thesis]. Queensland University of Technology; 2010. Available from: https://eprints.qut.edu.au/33233/

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

University of Victoria

6. Noble, Michael-Anne. Characterization of critical thinking indicators in problem-based learning online discussions of blended and distance undergraduate environmental science students using the community of inquiry model.

Degree: Department of Curriculum and Instruction, 2017, University of Victoria

URL: https://dspace.library.uvic.ca//handle/1828/8516

► This mixed methods study compared distance and blended undergraduate environmental students at Royal Roads University (RRU) as they participated in online asynchronous PBL case discussion… (more)

▼ This mixed methods study compared distance and blended undergraduate environmental students at Royal Roads University (RRU) as they participated in online asynchronous PBL case discussion forums as part of an Ecotoxicology course. This study examined the differences between distance and blended teams in their activity, approaches, and levels of critical thinking in an online PBL activity. Critical thinking was evaluated using the cognitive presence indicators of the community of inquiry framework developed by Garrison, Anderson and Archer (2001). An organization indicator was added to the framework to capture posts that organized the discussion forum layout or the team and the distribution of work. The use of the organization indicator in the thread map analysis revealed that teams adopted one of two approaches to the online PBL activity, either an organic approach or an organizational scaffold approach. An open coding approach to content analysis of the posts was used to develop two coding schemes to capture the use of learning scaffolds and degree of online collaboration respectively. These coding schemes were used to compare scaffolding and collaboration behaviours of distance and blended students during the online PBL activity. The study found that whether teams used the online discussion forums or face-to-face discussion as their primary communication method influenced both the timing and the critical thinking content of the online discussion forums. Student moderators’ choices influenced the structure and approach to the PBL activity, as well as the form of document assembly that was observed in the online discussion forums. The learning scaffolds coding scheme demonstrated that both distance and blended students were reading beyond the assigned reading list. Both distance and blended students appeared to develop skills in identifying information gaps over the progression of the PBL case problems as their observable level of critical thinking remained consistent as the problem scaffolding was faded. Although both environmental and non-environmental work experience may be used to scaffold team learning, they are used differently. Online PBL is a good fit for the Royal Roads University Learning and Teaching Model and may be used to provide some consistency across blended and online course content. Advisors/Committee Members: Pelton, Timothy W. (supervisor).

Subjects/Keywords: critical thinking; problem-based learning; online discussions; community of inquiry; distance education; blended education; undergraduate; environmental science; collaborative learning; cognitive presence; learning scaffolds; thread maps; content analysis; student moderators; collaborative document assembly; mixed methods; assessment of online discussions; learning and teaching model; teaching presence; organization indicator; online PBL; asynchronous discussion forums

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APA · Chicago · MLA · Vancouver · CSE | Export to Zotero / EndNote / Reference Manager

APA (6^th Edition):

Noble, M. (2017). Characterization of critical thinking indicators in problem-based learning online discussions of blended and distance undergraduate environmental science students using the community of inquiry model. (Thesis). University of Victoria. Retrieved from https://dspace.library.uvic.ca//handle/1828/8516

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Chicago Manual of Style (16^th Edition):

Noble, Michael-Anne. “Characterization of critical thinking indicators in problem-based learning online discussions of blended and distance undergraduate environmental science students using the community of inquiry model.” 2017. Thesis, University of Victoria. Accessed January 19, 2021. https://dspace.library.uvic.ca//handle/1828/8516.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

MLA Handbook (7^th Edition):

Noble, Michael-Anne. “Characterization of critical thinking indicators in problem-based learning online discussions of blended and distance undergraduate environmental science students using the community of inquiry model.” 2017. Web. 19 Jan 2021.

Vancouver:

Noble M. Characterization of critical thinking indicators in problem-based learning online discussions of blended and distance undergraduate environmental science students using the community of inquiry model. [Internet] [Thesis]. University of Victoria; 2017. [cited 2021 Jan 19]. Available from: https://dspace.library.uvic.ca//handle/1828/8516.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Council of Science Editors:

Noble M. Characterization of critical thinking indicators in problem-based learning online discussions of blended and distance undergraduate environmental science students using the community of inquiry model. [Thesis]. University of Victoria; 2017. Available from: https://dspace.library.uvic.ca//handle/1828/8516

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

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