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- masters theses (x)
- Janies, Daniel (x)
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- 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
- 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
- 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
- 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...
- Title
- Gene polymorphisms among Plasmodium vivax geographical isolates and the potential as new biomarkers for gametocyte detection
- Author
- Janies, Daniel, Lo, Eugenia, Ford, Anthony
- Date Created
- 2022
- Subjects--Topical
- Genomics, Biology
- Description
- The unique biological features of Plasmodium vivax not only make it difficult to control but also to eliminate. For the transmission of the malaria parasite from infected human to the vector, gametocytes play a major role. The transmission potenti...
- Title
- Integration of phylogenomics and molecular modeling reveals lineage-specific diversification of toxins in scorpions
- Author
- Janies, Daniel, Rush, Nathaniel, Witter, Zachary, Williams, John
- Date Created
- 2018
- Subjects--Topical
- Genomics, Biology
- Description
- Scorpions have evolved a variety of toxins with a plethora of biological targets, but characterizing their evolution has been limited by the lack of a comprehensive phylogenetic hypothesis of scorpion relationships grounded in modern, genome-scale...
- Title
- Patch dynamics modeling framework from pathogens' perspective : Unified and standardized approach for complicated epidemic systems
- Author
- Janies, Daniel, Chen, Shi, Lo, Eugenia, Dulin, Michael
- Date Created
- 2020
- Subjects--Topical
- Communicable diseases, Biology
- Description
- Mathematical models are powerful tools to investigate, simulate, and evaluate potential interventions for infectious diseases dynamics. Much effort has focused on the Susceptible-Infected-Recovered (SIR)-type compartment models. These models consi...
- Title
- Phylogeny of echinoderm hemoglobins
- Author
- Janies, Daniel, Linchangco, Gregorio V., Jr.
- Date Created
- 2015
- Subjects--Topical
- Genomics, Biology
- Description
- Background Recent genomic information has revealed that neuroglobin and cytoglobin are the two principal lineages of vertebrate hemoglobins, with the latter encompassing the familiar myoglobin and alpha-globin/beta-globin tetramer hemoglobin, and ...
- Title
- Phylotranscriptomic analysis uncovers a wealth of tissue inhibitor of metalloproteinases variants in echinoderms
- Author
- Janies, Daniel, Clouse, Ronald M., Linchangco, Gregorio V., Jr.
- Date Created
- 2015
- Subjects--Topical
- Genomics, Biology
- Description
- Tissue inhibitors of metalloproteinases (TIMPs) help regulate the extracellular matrix (ECM) in animals, mostly by inhibiting matrix metalloproteinases (MMPs). They are important activators of mutable collagenous tissue (MCT), which have been exte...
- Title
- The first complete mitochondrial genome of the sand dollar Sinaechinocyamus mai (Echinoidea: Clypeasteroida)
- Author
- Janies, Daniel, Machado, Denis Jacob
- Date Created
- 2020
- Subjects--Topical
- Genomics, Biology
- Description
- Morphologic and molecular data often lead to different hypotheses of phylogenetic relationships. Such incongruence has been found in the echinoderm class Echinoidea. In particular, the phylogenetic status of the order Clypeasteroida is not well re...
- Title
- Tracking a serial killer : integrating phylogenetic relationships, epidemiology, and geography for two invasive meningococcal disease outbreaks
- Author
- Janies, Daniel, Galac, Madeline R., Kilianski, Andrew
- Date Created
- 2018
- Subjects--Topical
- Communicable diseases, Biology
- Description
- Background While overall rates of meningococcal disease have been declining in the United States for the past several decades, New York City (NYC) has experienced two serogroup C meningococcal disease outbreaks in 2005-2006 and in 2010-2013. The o...
- Title
- Twinkle twinkle brittle star : the draft genome of Ophioderma brevispinum (Echinodermata: Ophiuroidea) as a resource for regeneration research
- Author
- Janies, Daniel, Machado, Denis Jacob, Reid, Robert, Kofsky, Janice
- Date Created
- 2022
- Subjects--Topical
- Genomics, Biology
- Description
- Background Echinoderms are established models in experimental and developmental biology, however genomic resources are still lacking for many species. Here, we present the draft genome of Ophioderma brevispinum, an emerging model organism in the f...
- Title
- Updated phylogeny of chikungunya virus suggests lineage-specific RNA architecture
- Author
- Janies, Daniel
- Date Created
- 2019
- Subjects--Topical
- Communicable diseases, Biology
- Description
- Chikungunya virus (CHIKV), a mosquito-borne alphavirus of the family Togaviridae, has recently emerged in the Americas from lineages from two continents: Asia and Africa. Historically, CHIKV circulated as at least four lineages worldwide with both...
- Title
- Venomix : a simple bioinformatic pipeline for identifying and characterizing toxin gene candidates from transcriptomic data
- Author
- Janies, Daniel, Reitzel, Adam M., Macrander, Jason
- Date Created
- 2018
- Subjects--Topical
- Genomics, Biology
- Description
- The advent of next-generation sequencing has resulted in transcriptome-based approaches to investigate functionally significant biological components in a variety of non-model organism. This has resulted in the area of venomics: a rapidly growing ...