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Articles 1 - 6 of 6
Full-Text Articles in Bioinformatics
Integrative High-Throughput Study Of Arsenic Hyper-Accumulation In Pteris Vittata, Qiong Wu
Integrative High-Throughput Study Of Arsenic Hyper-Accumulation In Pteris Vittata, Qiong Wu
Open Access Dissertations
Arsenic is a natural contaminant in the soil and ground water, which raises considerable concerns in food safety and human health worldwide. The fernPteris vittata (Chinese brake fern) is the first identified arsenic hyperaccumulator[1]. It and its close relatives have un-paralleled ability to tolerant arsenic and feature unique arsenic metabolisms. The focus of the research presented in this thesis is to elucidate the fundamentals of arsenic tolerance and hyper-accumulation in Pteris vittata through high throughput technology and bioinformatics tools. The transcriptome of the P. vittatagametophyte under arsenate stress was obtained using RNA-Seq technology and Trinity de novo assembly. …
Graphical User Interface On Analysis Of Mechanics And Dynamics Of Biopolymers In Living Cells, Peter D. Russel, Shubham Agrawal, Taeyoon Kim, Abdel-Rahman Hassan
Graphical User Interface On Analysis Of Mechanics And Dynamics Of Biopolymers In Living Cells, Peter D. Russel, Shubham Agrawal, Taeyoon Kim, Abdel-Rahman Hassan
The Summer Undergraduate Research Fellowship (SURF) Symposium
The mechanical properties of cells depend on the qualities of filamentous-actin (f-actin for short), among other cytoskeletal polymers. The ability to quickly determine f-actin qualities in a sample will help cellular biologists with cytoskeletal protein research. The goal of this project is to create a Matlab program which would allow researchers to determine, with limited manual input, the average filament length and persistence lengths of selected filaments. Through the graphical user interface, the user loads the image stack and can optimize the tracking result by altering several expectations of the program such as the expected contrast between the filament and …
Analysis Of Mechanics And Dynamics Of Biopolymers In Living Cells, Shubham Agrawal, Peter D. Russel, Abdel-Rahman Hassan, Taeyoon Kim
Analysis Of Mechanics And Dynamics Of Biopolymers In Living Cells, Shubham Agrawal, Peter D. Russel, Abdel-Rahman Hassan, Taeyoon Kim
The Summer Undergraduate Research Fellowship (SURF) Symposium
F-actin polymers in the cytoskeleton provide mechanical strength and deformability to cells. Thus, understanding their dynamic responses to intracellular and extracellular cues is of critical importance for studying the biological and mechanical behaviors of cells. Unfortunately, to date, no computer software can provide researchers with adequate means to measure these responses since in vivo F-actin cytoskeleton is quite dynamic and complex unlike in vitro actin networks. We aim at developing a tool which would allow researchers to semi-automatically analyze time-lapse microscope images of these F-actin polymers and thus evaluate the length and stochastic dynamics of F-actins (filament elongation, shrinkage and …
Prediction Of The Protein Complex Assembly Pathway Using Multiple Docking Algorithm, Yoichiro Togawa
Prediction Of The Protein Complex Assembly Pathway Using Multiple Docking Algorithm, Yoichiro Togawa
Open Access Theses
Proteins often function as a complex of multiple subunits, and the quaternary structure is important for proper function. An ordered assembly pathway is one of the strategies nature has developed to obtain the correct conformation: studies have shown a relationship between the assembly pathway and evolution of protein complexes. Identification of the assembly pathway and the intermediate structures helps drug development as well. Therefore, elucidation of the assembly pathway of protein complexes is important for understanding biochemical processes central to cellular function. Recent studies have demonstrated the assembly pathway of a protein complex can be predicted from its crystal structure …
Lipidomic Analysis Of Glioblastoma Multiforme, Soo Jung Ha
Lipidomic Analysis Of Glioblastoma Multiforme, Soo Jung Ha
Open Access Theses
Glioblastoma Multiforme (GBM) is the most common and malignant form of the primary brain tumor. Due to its highly invasive nature, current treatment options have not been able to improve the survival rate in past 20 years. In order to discover GBM therapeutic targets, omics technologies have been widely used to identify potential biomarkers. ^ This research study focused on investigating lipid biomarkers of human GBM orthotopic mouse models employing mass spectrometry. Human tumor cell lines GBM10 and GBM43 were injected in the right cerebral hemisphere and flank sites in NOD/SCID mice (n = 10 mice per group). Left cerebral …
Changes In Gene Expression And Viral Titer In Varroa Jacobsoni Mites After A Host Shift Asian To European Honey Bees, Gladys K. Andino Bautista
Changes In Gene Expression And Viral Titer In Varroa Jacobsoni Mites After A Host Shift Asian To European Honey Bees, Gladys K. Andino Bautista
Open Access Dissertations
Honey bees (Apis mellifera L.) are the most important insects for the pollination of crops and wildflowers. However, they have experienced increasing colony die-offs during the past two decades. Multiple species of parasitic mites have been described that affect honey bees. The most important species in beekeeping belong to the genus Varroa ( Varroa jacobsoniand Varroa destructor). Varroa mite parasitism of honey bees is thought to be the most significant cause of colony mortality worldwide, and mite resistance to active ingredients of acaricides has become common. V. destructor causes direct impacts on bee production as well as …