Search results | J. Murrey Atkins Library

Title: A subterminal growth zone at arm tip likely underlies life-long indeterminate growth in brittle stars
Author: Janies, Daniel, Machado, Denis Jacob, Reid, Robert, Kofsky, Janice
Date Created: 2022
Subjects--Topical: Genomics, Biology
Description: Background Echinoderms are a phylum of marine invertebrates with close phylogenetic relationships to chordates. Many members of the phylum Echinodermata are capable of extensive post-traumatic regeneration and life-long indeterminate growth. Diffe...

Title: ALGORITHMS FOR STRUCTURE BASED-PREDICTION OF TRANSCRIPTION FACTOR BINDING SITES
Author: Farrel, Alvin
Date Created: 2016
Subjects--Topical: Computer science, Biology, Bioinformatics
Description: Transcription factors (TFs) regulate gene expression through binding to specific target DNA sites. Accurate annotation of transcription factor binding sites (TFBSs) at genome scale represents an essential step toward our understanding of gene regu...

Title: Active Notch signaling is required for arm regeneration in a brittle star
Author: Janies, Daniel, Machado, Denis Jacob, Reid, Robert
Date Created: 2020
Subjects--Topical: Genomics, Biology
Description: Cell signaling pathways play key roles in coordinating cellular events in development. The Notch signaling pathway is highly conserved across all multicellular animals and is known to coordinate a multitude of diverse cellular events, including pr...

Title: COMPARATIVE ANALYSIS OF REPEAT LANDSCAPES IN AVENA (OAT)
Author: Burkes, Shelvasha
Date Created: 2020
Subjects--Topical: Biology, Bioinformatics, Botany
Description: Avena sativa, or common oat, is a staple crop and member of the Poaceae or Grass family. Following behind wheat, maize and rice, oats account for 10.5 million hectares of the world’s produced crops as of 2017. Phytocompounds such as β-glucan, aven...

Title: Calculating ensemble averaged descriptions of protein rigidity without sampling
Author: Jacobs, Donald J., Gonzalez, Luis C., Wang, Hui, Livesay, Dennis R.
Date Created: 2012
Subjects--Topical: Biology, Proteins
Description: Previous works have demonstrated that protein rigidity is related to thermodynamic stability, especially under conditions that favor formation of native structure. Mechanical network rigidity properties of a single conformation are efficiently cal...

Title: Characterizing the diversity of heat shock proteins in Nematostella vectensis and Saccharomyces cerevisiae
Author: Alexander, William, Reitzel, Adam M., Truman, Andrew
Date Created: 2022
Subjects--Topical: Heat shock proteins, Biology
Description: Heat shock proteins (HSPs) are a highly conserved family of proteins critical to both environmental stress response and cellular function under normal conditions. More specifically HSPs are chaperone proteins that work to refold other misfolded pr...

Title: Chemoenzymatic preparation of a Campylobacter jejuni lipid-linked heptasaccharide on an azide-linked polyisoprenoid
Author: Reid, Amanda J., Erickson, Katelyn M., Hazel, Joseph M., Troutman, Jerry M.
Date Created: 2023
Subjects--Topical: Biology, Carbohydrates
Description: Complex poly- and oligosaccharides on the surface of bacteria provide a unique fingerprint to different strains of pathogenic and symbiotic microbes that could be exploited for therapeutics or sensors selective for specific glycans. To discover re...

Title: Content and sentiment surveillance (CSI) : A critical component for modeling modern epidemics
Author: Janies, Daniel, Chen, Shi, Zhang, Dongsong
Date Created: 2023
Subjects--Topical: Communicable diseases, Biology
Description: Comprehensive surveillance systems are the key to provide accurate data for effective modeling. Traditional symptom-based case surveillance has been joined with recent genomic, serologic, and environment surveillance to provide more integrated dis...

Title: Convergent shifts in host-associated microbial communities across environmentally elicited phenotypes
Author: Reitzel, Adam M., Carrier, Tyler J.
Date Created: 2018
Subjects--Topical: Evolution (Biology), Biology
Description: Morphological plasticity is a genotype-by-environment interaction that enables organisms to increase fitness across varying environments. Symbioses with diverse microbiota may aid in acclimating to this variation, but whether the associated bacter...

Title: Cranial Capacity Variation of Pleistocene Homo and Possible Speciation Events
Author: Hudock, Autumn
Date Created: 2021
Subjects--Topical: Biology, Paleontology, Evolutionary developmental biology
Description: The field of paleoanthropology is tasked with studying the morphology of extinct hominins using fossilized remains. To study the evolution of the human brain, researchers use endocast data derived from fossil skulls, in order to assess when and ho...

Title: DNA extraction method plays a significant role when defining bacterial community composition in the marine invertebrate Echinometra mathaei
Author: Reitzel, Adam M., Ketchum, Remi, Carrier, Tyler J.
Date Created: 2018
Subjects--Topical: Bacteria, Biology
Description: The microbial assemblages of marine organisms play fundamental biological roles in their eukaryotic hosts. Studies aimed at characterizing this diversity have increased over the last decade and with the availability of high-throughput sequencing, ...

Title: Daily cycle in oxygen consumption by the sea anemone Nematostella vectensis Stephenson
Author: Reitzel, Adam M., Maas, Amy E., Jones, Ian T.
Date Created: 2016
Subjects--Topical: Gene expression, Biology
Description: In bilaterian animals, the circadian clock is intimately involved in regulating energetic metabolism. Although cnidarians exhibit diel behavioral rhythms including cycles in locomotor activity, tentacle extension and spawning, daily cycles in cnid...

Title: Design and Modulation of Novel Chemical Probes for RNA SHAPE Analysis: Water Soluble Isatoic Anhydrides and Nicotinic Acid Imidazolides
Author: Fessler, Adam
Date Created: 2021
Subjects--Topical: Chemistry, Biology
Description: The growing interest in RNA biology, along with an expansion in computational capabilities, throughput, and sensitivity has provided researchers new tools to probe RNA. RNA selective 2′-hydroxy acylation analyzed by primer extension (SHAPE) utiliz...

Title: Developmental and light-entrained expression of melatonin and its relationship to the circadian clock in the sea anemone Nematostella vectensis
Author: Reitzel, Adam M., Peres, Rafael, Passamaneck, Yale
Date Created: 2014
Subjects--Topical: Gene expression, Biology
Description: Background: The primary hormone of the vertebrate pineal gland, melatonin, has been identified broadly throughout the eukaryotes. While the role for melatonin in cyclic behavior via interactions with the circadian clock has only been reported in v...

Title: Developmental expression of germline- and sex determination-related genes in the ctenophore Mnemiopsis leidyi
Author: Reitzel, Adam M., Pang, Kevin, Martindale, Mark Q.
Date Created: 2016
Subjects--Topical: Evolution (Biology), Biology
Description: Background: An essential developmental pathway in sexually reproducing animals is the specification of germ cells and the differentiation of mature gametes, sperm and oocytes. The germline genes vasa, nanos and piwi are commonly identified in prim...

Title: Diel patterning in the bacterial community associated with the sea anemone Nematostella vectensis
Author: Reitzel, Adam M., Leach, Whitney B., Carrier, Tyler J.
Date Created: 2019
Subjects--Topical: Gene expression, Biology
Description: Microbes can play an important role in the physiology of animals by providing essential nutrients, inducing immune pathways, and influencing the specific species that compose the microbiome through competitive or facilitatory interactions. The com...

Title: ELUCIDATING THE MOLECULAR BASIS OF INHIBITION OF ENZYMES ESSENTIAL FOR BATERIALVIRULENCE: THE ACTIVITY OF THREE GLYCOSYLTRANSFERASES AND A POTENTIAL DRUG TARGET, UNDECAPRENYL PYROPHOSPHATE SYNTHASE
Author: Okwei, Elleansar
Date Created: 2016
Subjects--Topical: Chemistry, Biology, Biochemistry
Description: The fight against bacterial infection is one of the most important branches of modern medicine. Due to the emergence of strains of antibiotic-resistant bacteria, researchers have been presented with complex challenges in an effort to combat these ...

Title: EchinoDB : an update to the web-based application for genomic and transcriptomic data on echinoderms
Author: Janies, Daniel
Date Created: 2022
Subjects--Topical: Genomics, Biology
Description: Background: Here we release a new version of EchinoDB, EchinoDB v2.0 (https://echinodb.uncc.edu). EchinoDB is a database of genomic and transcriptomic data on echinoderms. The initial database consisted of groups of 749,397 orthologous and paralog...

Title: EchinoDB, an application for comparative transcriptomics of deeply-sampled clades of echinoderms
Author: Janies, Daniel, Witter, Zachary, Linchangco, Gregorio V., Jr.
Date Created: 2016
Subjects--Topical: Genomics, Biology
Description: Background: One of our goals for the echinoderm tree of life project (http://echinotol.org) is to identify orthologs suitable for phylogenetic analysis from next-generation transcriptome data. The current dataset is the largest assembled for echin...

Title: Four challenges associated with current mathematical modeling paradigm of infectious diseases and call for a shift
Author: Janies, Daniel, Chen, Shi, Robinson, Patrick, Dulin, Michael
Date Created: 2020
Subjects--Topical: Communicable diseases, Biology
Description: Mathematical models are critical tools to characterize COVID-19 dynamics and take action accordingly. We identified 4 major challenges associated with the current modeling paradigm (SEIR) that hinder the efforts to accurately characterize the emer...