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Title: SCREENING AND COMPARING GENES OF INTEREST IN MICROBIAL SPECIES USING WHOLE GENOME SEQUENCING
Creator: Butler, Robert Raymond Iii
Date: 2016, 2016-12
Description: This study utilized the latest advances in whole genome sequencing, assembly and annotation to develop high quality curated genomes, which...
Show moreThis study utilized the latest advances in whole genome sequencing, assembly and annotation to develop high quality curated genomes, which were compared to related organisms with differential traits to identify or characterize the trait-associated genes. Additionally, we were able to infer potential origins of these traits, and present gene targets for further study. Here we examined two biological phenomena: the desulfurization capability of a Paenibacillus species, and the exceptionally high spore heat resistance of Clostridium sporogenes PA 3679. Microorganisms with the capability to desulfurize petroleum are in high demand with escalating restrictions currently placed on fuel purity. Thermophilic desulfurizers are particularly valuable in high temperature industrial applications. A culture containing Paenibacillus naphthalenovorans 32O-Y and Paenibacillus sp. 32O-W was isolated by repeated passage of a soil sample at up to 55°C in medium containing dibenzothiophene (DBT) as sulfur source. Only 32O-Y metabolized DBT, apparently via the 4S pathway, however 32O-W enhanced DBT metabolism by 32O-Y in a mixed culture. Genome sequencing identified desulfurization gene homologs in the strains consistent with their desulfurization properties, with 32O-W lacking homologs for two necessary components of the 4S pathway. Both 32O-Y alone and the 32O-Y/32O-W mixed culture may be useful in development of an improved thermophilic petroleum biodesulfurization process. Clostridium sporogenes PA 3679 is a nonpathogenic, nontoxic model organism for proteolytic Clostridium botulinum used in the validation of conventional thermal food processes due to its ability to produce highly heat-resistant endospores. Because of its public safety importance, the uncertain taxonomic classification and genetic diversity of PA 3679 are concerns. Therefore, isolates of C. sporogenes PA 3679 were obtained from various sources and characterized using pulsed-field gel electrophoresis (PFGE) and whole-genome sequencing. The phylogenetic relatedness and genetic variability were assessed based on 16S rRNA sequence and whole-genome single nucleotide polymorphism (SNP) analysis. All C. sporogenes PA 3679 isolates were categorized into two clades. Clade I C. sporogenes isolates were genetically distinct from clade II isolates, and thermal destruction studies revealed that clade I isolates were more sensitive to high temperature than clade II isolates; clade II demonstrating the typical phenotype of PA 3679. A pan-genomic analysis of clade I and clade II isolates identified genes associated with PA 3679’s exceptional heat resistance. The most significant difference was the acquisition of a second spoVA operon, spoVA2, whose products are responsible for dipicolinic acid transport into the spore core during sporulation. The small acid-soluble spore protein ssp4 potentially plays a role in spore heat resistance, though further exploration is needed. spoVA2 was also found in some C. botulinum species clustering phylogenetically with PA 3679. Most other C. sporogenes examined both lack the spoVA2 locus and are phylogenetically distant within the group I Clostridia, adding to the understanding that C. sporogenes are dispersed C. botulinum strains lacking toxin genes. C. sporogenes strains are thus a very eclectic group, and few strains possess the characteristic heat resistance of PA 3679. Analysis from both Paenibacillus and Clostridium models revealed some interesting insights into genomic analysis that extrapolate to other projects. Each of the four generations of sequencing technology has remained a necessary component of genomics. The delineating factors for which sequencing tool to use depends heavily on the application they are being used for. New software for assembly and annotation are developed and released daily, and the challenge has become deciding which tools are actually an improvement over existing methodology. In order to best facilitate the large amount of genomic data in need of analysis, pipelines that are consistent and comprehensive are of higher value. Our studies identified many useful tools for future comparative analysis, and explored some novel ways to represent data in a visually appealing manner. As these tools and new ones continue to be developed, the value of genomics will increase with the new insights it provides.
Ph.D. in Biology, December 2016
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Title: Calibration of the pitot steammeter
Creator: Carr, A. L, Strube, H. L
Date: 2009, 1906
Publisher: Armour Institute of Technology
Description: http://www.archive.org/details/calibrationofpit00carr
Thesis (B.S.)--Armour Institute of Technology, 1906 B.S. in Mechanical Engineering, 1906

Title: By-products from wool washing
Creator: Butterman, Samuel, Marx, Victor E
Date: 2009, 1916
Publisher: Armour Institute of Technology
Description: http://www.archive.org/details/byproductsfromwo00butt
Thesis (B.S.)--Armour Institute of Technology; Includes folded leaves in back pocket

Title: By-products from garbage
Creator: Mease, A. J., Goorskey, N. J., Botts, T. E.
Date: 2009, 1917
Publisher: Armour Institute of Technology
Description: http://www.archive.org/details/byproductsfromga00meas
Thesis (B.S.)--Armour Institute of Technology

Title: Calibration of the pitot tube
Creator: Dreffein, Henry A., Mcburney, Edward, Jr
Date: 2009, 1905
Publisher: Armour Institute of Technology
Description: http://www.archive.org/details/calibrationofpit00dref
Thesis (B.S.)--Armour Institute of Technology, 1905 B.S. in Mechanical Engineering, 1905

Title: Calibration test of electric water meter
Creator: Steward, W. H., Jr
Date: 2009, 1915
Publisher: Armour Institute of Technology
Description: http://www.archive.org/details/calibrationtesto00stew
Thesis (B.S.)--Armour Institute of Technology, 1915 Bibliography: leaves 19-27 B.S. in...
Show morehttp://www.archive.org/details/calibrationtesto00stew
Thesis (B.S.)--Armour Institute of Technology, 1915 Bibliography: leaves 19-27 B.S. in Mechanical Engineering, 1915
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Title: Fab Lab (Semester Unknown) IPRO 333: Fab Lab IPRO 333 Final Presentation F08
Creator: Brassil, Michael, Lamonica, Regina, Luciani, Joseph, Ly, Christine, Martinez, Jessica, Martinez, Michael, Murman, Patricia, Ptak, Treyson, Reyes, Ivan, Villa, Jacqueline
Date: 2008, 2008-12
Description: Fabrication Laboratories (Fab Labs) were started as a community outreach program by the Massachusetts Institute of Technology to provide...
Show moreFabrication Laboratories (Fab Labs) were started as a community outreach program by the Massachusetts Institute of Technology to provide digital fabrication tools for rapid prototyping to the general public. The Museum of Science and Industry in Chicago (MSI) has partnered with this IPRO to further develop their existing Fab Lab. IPRO 333 has been assigned the task of working with the Fab Lab administrators to design methodologies for furthering the use of the laboratory and determining its end goals for both the museum and the community. Once these goals are established, we will support them with a list of projects that we will create and execute. By working with the lab directors to broaden the possible uses of the lab, we hope to encourage hands-on learning in local schools. This will promote membership at MSI and involve the community in science and technology programs and education. To accomplish this, we have broken into two teams, each of which will focus on a different audience. The first team will be responsible for designing and creating programs for more advanced and knowledgeable users of the equipment specific to the Fab Lab, such as the students enrolled in the Science Achievers program as well as museum members; the second team will be responsible for designing and implementing programs for less advanced users with more constrained timeframes, such as visiting families or groups of school children.
Deliverables
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Title: Automatic Insulin Pumps Using Recursive Multivariable Models and Adaptive Control Algorithms
Creator: Cinar, Ali, Oruklu, Meriyan
Date: 2014-04-09, 2014-04-08
Description: A method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a...
Show moreA method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a patient, a physiological status monitoring system for measuring at least one physical or metabolic variable of the patient, and an automatic controller in communication with the glucose sensor and the physiological status monitoring system. The controller includes a prediction module for automatically predicting a future glucose level using data measured by the glucose sensor and the physiological sensor.
Sponsorship: Illinois Institute of Technology
United States Patent
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Title: Automatic Insulin Pumps Using Recursive Multivariable Models and Adaptive Control Algorithms
Creator: Cinar, Ali, Oruklu, Meriyan
Date: 2014-04-09, 2014-04-08
Description: A method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a...
Show moreA method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a patient, a physiological status monitoring system for measuring at least one physical or metabolic variable of the patient, and an automatic controller in communication with the glucose sensor and the physiological status monitoring system. The controller includes a prediction module for automatically predicting a future glucose level using data measured by the glucose sensor and the physiological sensor.
Sponsorship: Illinois Institute of Technology
United States Patent
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Title: Automatic Insulin Pumps Using Recursive Multivariable Models and Adaptive Control Algorithms
Creator: Cinar, Ali, Oruklu, Meriyan
Date: 2014-04-09, 2014-04-08
Description: A method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a...
Show moreA method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a patient, a physiological status monitoring system for measuring at least one physical or metabolic variable of the patient, and an automatic controller in communication with the glucose sensor and the physiological status monitoring system. The controller includes a prediction module for automatically predicting a future glucose level using data measured by the glucose sensor and the physiological sensor.
Sponsorship: Illinois Institute of Technology
United States Patent
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Title: Automatic Insulin Pumps Using Recursive Multivariable Models and Adaptive Control Algorithms
Creator: Cinar, Ali, Oruklu, Meriyan
Date: 2014-04-09, 2014-04-08
Description: A method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a...
Show moreA method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a patient, a physiological status monitoring system for measuring at least one physical or metabolic variable of the patient, and an automatic controller in communication with the glucose sensor and the physiological status monitoring system. The controller includes a prediction module for automatically predicting a future glucose level using data measured by the glucose sensor and the physiological sensor.
Sponsorship: Illinois Institute of Technology
United States Patent
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Title: Automatic Insulin Pumps Using Recursive Multivariable Models and Adaptive Control Algorithms
Creator: Cinar, Ali, Oruklu, Meriyan
Date: 2014-04-09, 2014-04-08
Description: A method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a...
Show moreA method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a patient, a physiological status monitoring system for measuring at least one physical or metabolic variable of the patient, and an automatic controller in communication with the glucose sensor and the physiological status monitoring system. The controller includes a prediction module for automatically predicting a future glucose level using data measured by the glucose sensor and the physiological sensor.
Sponsorship: Illinois Institute of Technology
United States Patent
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Title: Automatic Insulin Pumps Using Recursive Multivariable Models and Adaptive Control Algorithms
Creator: Cinar, Ali, Oruklu, Meriyan
Date: 2014-04-09, 2014-04-08
Description: A method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a...
Show moreA method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a patient, a physiological status monitoring system for measuring at least one physical or metabolic variable of the patient, and an automatic controller in communication with the glucose sensor and the physiological status monitoring system. The controller includes a prediction module for automatically predicting a future glucose level using data measured by the glucose sensor and the physiological sensor.
Sponsorship: Illinois Institute of Technology
United States Patent
Show less

Title: Automatic Insulin Pumps Using Recursive Multivariable Models and Adaptive Control Algorithms
Creator: Cinar, Ali, Oruklu, Meriyan
Date: 2014-04-09, 2014-04-08
Description: A method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a...
Show moreA method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a patient, a physiological status monitoring system for measuring at least one physical or metabolic variable of the patient, and an automatic controller in communication with the glucose sensor and the physiological status monitoring system. The controller includes a prediction module for automatically predicting a future glucose level using data measured by the glucose sensor and the physiological sensor.
Sponsorship: Illinois Institute of Technology
United States Patent
Show less

Title: Automatic Insulin Pumps Using Recursive Multivariable Models and Adaptive Control Algorithms
Creator: Cinar, Ali, Oruklu, Meriyan
Date: 2014-04-09, 2014-04-08
Description: A method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a...
Show moreA method and device for monitoring or treating patient glucose levels. The device includes a glucose sensor for measuring a glucose level of a patient, a physiological status monitoring system for measuring at least one physical or metabolic variable of the patient, and an automatic controller in communication with the glucose sensor and the physiological status monitoring system. The controller includes a prediction module for automatically predicting a future glucose level using data measured by the glucose sensor and the physiological sensor.
Sponsorship: Illinois Institute of Technology
United States Patent
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Title: Increasing Computer Science Awareness (Semester Unknown) IPRO 321: IncreasingComputerScienceAwarenessIPRO321FinalReportSp09
Creator: Chin, Jason, Xing, Jianqi, Mitillos, Christos, Edwards, Herbert, Aguilar, Sergio, Ahsan, Saad, Martinez, Eddie, Chen, Qiaoqiao
Date: 2009, 2009-05
Description: Description: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of...
Show moreDescription: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of students in the Chicago area taking Computer Science (CS) courses in high school and college. The team will accomplish this by debunking myths and increasing the un- derstanding of what CS and computational thinking entails, explaining and providing evidence for why CS is important, and emphasizing importance of attracting women and underrepresented minorities to CS.
Deliverables
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Title: Increasing Computer Science Awareness (Semester Unknown) IPRO 321: IncreasingComputerScienceAwarenessIPRO321PosterSp09
Creator: Chin, Jason, Xing, Jianqi, Mitillos, Christos, Edwards, Herbert, Aguilar, Sergio, Ahsan, Saad, Martinez, Eddie, Chen, Qiaoqiao
Date: 2009, 2009-05
Description: Description: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of...
Show moreDescription: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of students in the Chicago area taking Computer Science (CS) courses in high school and college. The team will accomplish this by debunking myths and increasing the un- derstanding of what CS and computational thinking entails, explaining and providing evidence for why CS is important, and emphasizing importance of attracting women and underrepresented minorities to CS.
Deliverables
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Title: Increasing Computer Science Awareness (Semester Unknown) IPRO 321: IncreasingComputerScienceAwarenessIPRO321ProjectPlanSp09
Creator: Chin, Jason, Xing, Jianqi, Mitillos, Christos, Edwards, Herbert, Aguilar, Sergio, Ahsan, Saad, Martinez, Eddie, Chen, Qiaoqiao
Date: 2009, 2009-05
Description: Description: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of...
Show moreDescription: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of students in the Chicago area taking Computer Science (CS) courses in high school and college. The team will accomplish this by debunking myths and increasing the un- derstanding of what CS and computational thinking entails, explaining and providing evidence for why CS is important, and emphasizing importance of attracting women and underrepresented minorities to CS.
Deliverables
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Title: Increasing Computer Science Awareness (Semester Unknown) IPRO 321: IncreasingComputerScienceAwarenessIPRO321BrochureSp09
Creator: Chin, Jason, Xing, Jianqi, Mitillos, Christos, Edwards, Herbert, Aguilar, Sergio, Ahsan, Saad, Martinez, Eddie, Chen, Qiaoqiao
Date: 2009, 2009-05
Description: Description: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of...
Show moreDescription: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of students in the Chicago area taking Computer Science (CS) courses in high school and college. The team will accomplish this by debunking myths and increasing the un- derstanding of what CS and computational thinking entails, explaining and providing evidence for why CS is important, and emphasizing importance of attracting women and underrepresented minorities to CS.
Deliverables
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Title: Increasing Computer Science Awareness (Semester Unknown) IPRO 321: IncreasingComputerScienceAwarenessIPRO321FinalPresentationSp09
Creator: Chin, Jason, Xing, Jianqi, Mitillos, Christos, Edwards, Herbert, Aguilar, Sergio, Ahsan, Saad, Martinez, Eddie, Chen, Qiaoqiao
Date: 2009, 2009-05
Description: Description: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of...
Show moreDescription: The project team's goal is to get high school students excited about Computer Science, and to ultimately increase the number of students in the Chicago area taking Computer Science (CS) courses in high school and college. The team will accomplish this by debunking myths and increasing the un- derstanding of what CS and computational thinking entails, explaining and providing evidence for why CS is important, and emphasizing importance of attracting women and underrepresented minorities to CS.
Deliverables
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