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Visualize To Realize: Improving Safety Of First Responders, Vikas Sahu 2018 University of Nebraska at Omaha

Visualize To Realize: Improving Safety Of First Responders, Vikas Sahu

Student Research and Creative Activity Fair

The goal of this study is to improve the safety of first responders during an emergency hazardous material (hazmat) incident.

  • A first responder (FR) is an individual who arrives first during a hazmat incident and takes the initiative to act in order to minimize the risk to public health and property from such incidents. Often first responders are firefighters.
  • The reports of National Fire Protection Association recorded a national average of more than 30,000 firefighter injuries between 2010-16 (National Fire Protection Association, 2017).
  • According to the US Fire Administration, an average fatality of 120 firefighters were recorded between 2010-16 ...


Neighborhood Beautification Graph Layout Through Message Passing, Severino F. Galan, Ole J. Mengshoel 2018 Carnegie Mellon University

Neighborhood Beautification Graph Layout Through Message Passing, Severino F. Galan, Ole J. Mengshoel

Ole J Mengshoel

Graph layout algorithms are used to compute aesthetic and useful visualizations of graphs. In general, for graphs with up to a few hundred nodes, force-directed layout algorithms produce good layouts. Unfortunately, for larger graphs, they often get stuck at local minima and have high computational complexity. In this paper, we introduce a novel message passing technique for graph layout. The key idea of our message passing technique is that an aesthetic layout can be obtained if each node independently suggests aesthetic placements of its neighbors. In other words, every node sends messages to its neighbors, indicating new and better positions ...


Customized Nonlinear Bandits For Online Response Selection In Neural Conversation Models, Bing Liu, Tong Yu, Ole Mengshoel, Ian Lane 2018 Selected Works

Customized Nonlinear Bandits For Online Response Selection In Neural Conversation Models, Bing Liu, Tong Yu, Ole Mengshoel, Ian Lane

Ole J Mengshoel

Dialog response selection is an important step towards natural response generation in conversational agents. Existing work on neural conversational models mainly focuses on offline supervised learning using a large set of context-response pairs. In this paper, we focus on online learning of response selection in retrieval-based dialog systems.We propose a contextual multi-armed bandit model with a nonlinear reward function that uses distributed representation of text for online response selection. A bidirectional LSTM is used to produce the distributed representations of dialog context and responses, which serve as the input to a contextual bandit. In learning the bandit, we propose ...


Model File Name: 1ehz-Trna(Thick).Stl, Michelle Howell, Karin van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: 1ehz-Trna(Thick).Stl, Michelle Howell, Karin Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: 1ehz-tRNA(thick).stl

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of Phe-tRNA in a thick stick-representation (PDB: 1ehz), designed to go with a teaching module comparing DNA and RNA basic structures and functions. The printable model is already uploaded to Shapeways.com under the name “tRNA-Phe small”. This model has been printed successfully using these parameters on Shapeways’ laser sintering printer in the following materials: Strong & Flexible Plastic and Elasto Plastic.


Model File Name: 1ehz-Trna(Thin-Big).X3d, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: 1ehz-Trna(Thin-Big).X3d, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: 1ehz-tRNA(thin-big).x3d

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of Phe-tRNA in a large, but thin stick-representation (PDB: 1ehz), designed to go with a teaching module comparing DNA and RNA basic structures and functions. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Full color Phe-tRNA (1ehz)”. This model has been printed successfully using these parameters on Shapeways’ laser sintering printer in the following material: Strong & Flexible Plastic.


Model File Name: 1lmb-Dbd-Tfmono.Stl, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: 1lmb-Dbd-Tfmono.Stl, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: 1lmb-DBD-TFmono.stl

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of the DNA binding domain of a Lambda repressor transcription factor monomer that accompanies the full color DNA helix (PDB: 1lmb). It is in a cartoon ribbon representation with key amino acid residues in stick representation to highlight interactions with the DNA. This model is designed to accompany a teaching module illustrating transcription factor-DNA binding. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Lambda TF DBD”. This model has been printed successfully ...


Model File Name: 1lmb-Tfdimer-Manif-Sc1-8-Parts-V3b.Stl, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: 1lmb-Tfdimer-Manif-Sc1-8-Parts-V3b.Stl, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: 1lmb-TFdimer-manif-sc1-8-parts-v3b.stl

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of a ribbon and stick representation of the transcription factor lambda repressor (PDB: 1lmb). Key amino acid residues are in stick representation to illustrate the interactions between the repressor and the DNA to which it binds. Key residues have been designed with sites to add magnets to illustrate these interactions. Sphere magnets with a 1/8” diameter can be purchased separately from K&J Magnets. This model can interact with a 19-bp DNA segment model and is designed to accompany ...


Model File Name: 1lmb-Dnalong_Fordimer-Test6b.Stl, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: 1lmb-Dnalong_Fordimer-Test6b.Stl, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: 1lmb-DNAlong_fordimer-test6b.stl

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of the 19-bp segment of DNA to which Lambda repressor transcription factor interacts (PDB: 1lmb). It is in a stick representation and has been designed with sites to add magnets to illustrate binding interactions with the transcription factor. Sphere magnets with a 1/8” diameter can be purchased separately from K&J Magnets. The model can interact with the dimer form of the transcription factor. This model is designed to accompany a teaching module illustrating transcription factor-DNA binding. The printable ...


Model File Name: Dna-294bp-Magnet-Supercoil.Stl, Michelle Howell, Karin V. van Dijk, Kalika Mahato, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Dna-294bp-Magnet-Supercoil.Stl, Michelle Howell, Karin V. Van Dijk, Kalika Mahato, Rebecca Roston

3-D printed model structural files

Model file name: DNA-294bp-magnet-supercoil.stl

Authors: Michelle E Howell, Karin van Dijk, Kalika Mahato, Rebecca L Roston

This is a teaching model of a long, thin representation of double stranded DNA (294 bp). The DNA model has small sites on the ends where the user can glue magnets to mimic circular DNA, and to aid in manipulating the model. Disc magnets with a diameter of 1/8” or 1/10” and thickness of 1/16” can be purchased online from K&J Magnetics and glued into the magnet sites. The model is designed to go with a teaching module on ...


Model File Name: Dna-294bp-Handle-Supercoil.Stl, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Dna-294bp-Handle-Supercoil.Stl, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: DNA-294bp-handle-supercoil.stl

Authors: Michelle E Howell, Karin van Dijk, Kalika Mahato, Rebecca L Roston

This is a teaching model of a long, thin representation of double stranded DNA (294 bp). The DNA model has small handles on the ends to aid in holding and manipulating the model. The model is designed to go with a teaching module on DNA supercoiling. The model can be accompanied by Nucleosome and H1 histone models to demonstrate DNA packaging in the cell. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “294bp DNA (handles ...


Model File Name: Dna-420bp-Handle-Supercoil.Stl, Michelle Howell, Karin V. van Dijk, Kalika Mahato, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Dna-420bp-Handle-Supercoil.Stl, Michelle Howell, Karin V. Van Dijk, Kalika Mahato, Rebecca Roston

3-D printed model structural files

Model file name: DNA-420bp-handle-supercoil.stl

Authors: Michelle E Howell, Karin van Dijk, Kalika Mahato, Rebecca L Roston

This is a teaching model of a long, thin representation of double stranded DNA (420 bp). The DNA model has small handles on the ends to aid in holding and manipulating the model. The model is designed to go with a teaching module on DNA supercoiling. The model can be accompanied by Nucleosome and H1 histone models to demonstrate DNA packaging in the cell. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “420bp DNA (handles ...


Model File Name: Dnalong-3pc-Lego.Stl, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Dnalong-3pc-Lego.Stl, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: DNAlong-3pc-Lego.stl

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of a stick representation of the DNA to which the transcription factor lambda repressor binds (PDB: 1lmb). This model can be adapted to accompany a teaching module illustrating transcription factor-DNA binding. The model has been designed in 3 parts that can be joined together by Lego®-style junctions. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Lego DNA with GCbp”. This model has been printed successfully using these parameters on Shapeways’ laser ...


Model File Name: H1-Protein.Stl, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: H1-Protein.Stl, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: H1-protein.stl

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of a crude representation of an H1-protein intended to accompany the nucleosome and a long, thin double stranded DNA helix model in order to illustrate DNA packaging and supercoiling. This model is designed to go with a teaching module on DNA supercoiling. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Histone H1 protein”. This model has been printed successfully using these parameters on Shapeways’ laser sintering printer in the following materials: Strong ...


Model File Name: Dna-420bp-Magnet-Supercoil.Stl, Michelle Howell, Karin V. van Dijk, Kalika Mahato, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Dna-420bp-Magnet-Supercoil.Stl, Michelle Howell, Karin V. Van Dijk, Kalika Mahato, Rebecca Roston

3-D printed model structural files

Model file name: DNA-420bp-magnet-supercoil.stl

Authors: Michelle E Howell, Karin van Dijk, Kalika Mahato, Rebecca L Roston

This is a teaching model of a long, thin representation of double stranded DNA (420 bp). The DNA model has small sites on the ends where the user can glue magnets to mimic circular DNA, and to aid in manipulating the model. Disc magnets with a diameter of 1/8” or 1/10” and thickness of 1/16” can be purchased online from K&J Magnetics and glued into the magnet sites. The model is designed to go with a teaching module on ...


Model File Name: Dna-Short-Helix.X3d, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Dna-Short-Helix.X3d, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: DNA-short-helix.x3d

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of a DNA helix in which the atoms are colored by heteroatom (PDB: 1lmb). This model is designed to go with a teaching module comparing DNA and RNA basic structures and functions, and with one that studies transcription factor-DNA binding. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “DNA helix - polynucleotide molecule”. This model has been printed successfully using these parameters on Shapeways’ binder jetting printer in the Coated Full Color Sandstone ...


Model File Name: Helix_H2o_Sphere2.Dae, Michelle Howell, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Helix_H2o_Sphere2.Dae, Michelle Howell, Rebecca Roston

3-D printed model structural files

Model file name: Helix_H2O_sphere2.dae

Authors: Michelle E Howell, Rebecca L Roston

This is a teaching model of a space fill representation of a protein α-helix (PDB: 3vjo). A space fill water molecule is also represented to illustrate the lack of space down the axis of an α-helix. This model can accompany a corresponding stick representation, a kinked α-helix, and a β-sheet. This model is designed to accompany a teaching module illustrating protein secondary structure and function. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Helix and Water (Space-fill)”. This model has ...


Model File Name: Alpha Helix 0.7.Dae, Michelle Howell, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Alpha Helix 0.7.Dae, Michelle Howell, Rebecca Roston

3-D printed model structural files

Model file name: alpha helix 0.7.dae

Authors: Michelle E Howell, Rebecca L Roston

This is a teaching model of a stick representation of a protein α-helix (PDB: 3vjo). This model can accompany a corresponding space fill representation, a kinked α-helix, and a β-sheet. These models were designed to accompany a teaching module illustrating protein secondary structure and function. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Alpha Helix_Thick”. This model has been printed successfully using these parameters on Shapeways’ binder jetting printer in the Coated Full Color Sandstone material.


Model File Name: Beta-Sheet_Rod 0.7.Dae, Michelle Howell, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Beta-Sheet_Rod 0.7.Dae, Michelle Howell, Rebecca Roston

3-D printed model structural files

Model file name: beta-sheet_rod 0.7.dae

Authors: Michelle E Howell, Rebecca L Roston

This is a teaching model of a stick representation of a protein β-sheet (PDB: 3vjo). This model is designed to accompany three other α-helix models: a space-fill representation of a straight α-helix, a stick representation of a straight α-helix, and a stick representation of a kinked α-helix. These models accompany a teaching module illustrating protein secondary structure and function. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Beta-sheet_Thick”. This model has been printed successfully using these parameters on ...


Model File Name: Alpha Helix Pro-Gly 0.7.Dae, Michelle Howell, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Alpha Helix Pro-Gly 0.7.Dae, Michelle Howell, Rebecca Roston

3-D printed model structural files

Model file name: alpha helix pro-gly 0.7.dae

Authors: Michelle E Howell, Rebecca L Roston

This is a teaching model of a stick representation of a protein α-helix with proline and glycine residues highlighted (PDB: 3vjo). This model is designed to accompany a straight α-helix in space fill representation, a straight α-helix in stick representation, and a stick β-sheet model as well as a teaching module illustrating protein secondary structure and function. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Alpha Helix_Pro-Gly”. This model has been printed successfully using these parameters ...


Model File Name: Nucleosome.Stl, Michelle Howell, Karin V. van Dijk, Rebecca Roston 2018 University of Nebraska - Lincoln

Model File Name: Nucleosome.Stl, Michelle Howell, Karin V. Van Dijk, Rebecca Roston

3-D printed model structural files

Model file name: Nucleosome.stl

Authors: Michelle E Howell, Karin van Dijk, Rebecca L Roston

This is a teaching model of a crude representation of a nucleosome intended to accompany the H1 histone protein and a long, thin double stranded DNA helix model in order to illustrate DNA packaging and supercoiling. This model is designed to go with a teaching module on DNA supercoiling. The printable model is already uploaded to Shapeways.com in the MacroMolecules shop under the name “Nucleosome”. This model has been printed successfully using these parameters on Shapeways’ laser sintering printer in the Strong & Flexible Plastic ...


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