Loading...
dcyphr | Genetics and Developmental Biology
Genetics and Developmental Biology

Research exploring genetics and its effect on the development of organisms. Includes articles from Yale BIOL 103 class.

  • 2

    likes

    dcyphr-d by Leanna Zelle on 2020-06-18
    AbstractVessel formation (angiogenesis) and inflammation are closely related. A protein on the vessel cells called Endoglin (CD105) is involved in angiogenesis. So this study aims to see if CD105 is also involved in inflammation. They used antibody staining to look at CD105 levels during inflammation and angiogenesis. CD105 was found in low levels in most of the tissue throughout the body. But, it was found at high levels in capillaries near hair follicles, alveoli, and lymph nodes. During wound...
  • 1

    likes

    dcyphr-d by Ivan Chan on 2020-06-18
    AbstractThe embryo of the common fruit fly (Drosophilia) develops based on a body plan that is set by maternal-effect genes, which are expressed in the mother. In this paper, the nos protein produced by the maternal-effect gene nanos is found to be necessary for the abdomen to form. In addition, if nos is not produced, blocking the maternal-effect gene hunchback can restore the abdomen. These results suggest that the nos gene product blocks the activity of the gene product hb of maternal hunchba...
  • 1

    likes

    dcyphr-d by Christina Hijiya on 2020-06-18
    AbstractDrosophila is a genus of flies that is commonly used as a model organism to study a variety of biological processes. The eyeless gene in Drosophila encodes a transcription factor. It is homologous (has a similar structure) to the Pax-6 gene and Aniridia gene in mice and humans respectively. Aniridia, Pax-6, and eyeless are all expressed during eye development. Loss-of-function mutations in these genes result in eye structures becoming smaller or being lost all together, suggesting that t...
  • 1

    likes

    dcyphr-d by David Chen on 2020-06-18
    AbstractThe Pan-Cancer Analysis of Whole Genomes Consortium has identified somatic mutations that represent a profile of characteristic signatures. The size of the curated dataset makes this discovery of mutation signatures the most comprehensive dataset yet. Estimated contributions of characteristic signatures for each cancer type can be associated with causes of cancer that originate in the body or from the environment. Aims The study aims to characterize the contribution of mutations from mul...
  • 0

    likes

    dcyphr-d by Janet Hsu on 2020-06-18
    Abstract The tuatara is a reptile species living only in New Zealand. The tuatara are a species that connect the extinct dinosaurs and modern reptiles evolutionarily. Researchers often study the tuatara to understand amniote evolution and development. Amniotes are vertebrates that lay eggs, including reptiles, birds, and some mammals. In this paper, the researchers analyzed the tuatara genome, which is one of the largest vertebrate genomes. They looked at proteins and non-coding RNA, and sequenc...
  • 0

    likes

    dcyphr-d by David Chen on 2020-06-18
    AbstractYilong et al. have developed a method to classify the variation of segments of the genome due to rearrangement of different segments. Method is based on sequencing data sourced from the Pan-Cancer Analysis of Whole Genomes (PCAWG) consortium, comprising of 2,658 whole genome cancer samples across 38 tumour types. Sixteen signatures of structural variation have been identified. Deletions and translocation of genome segments occur with characteristic lengths and locations. A variety of gen...
  • 0

    likes

    dcyphr-d by Christina Hijiya on 2020-06-18
    Abstract Precision medicine, an approach to treating disease that accounts for individual variability in genes, environment, and lifestyle, necessitates gathering diverse data. Rather than trying to gather as much data as possible, the intersections of different kinds of data are thought to enable identification of different subgroups of patients that have different combinations of disease and individual traits. In this study, the researchers test this thought using autism. The researchers comb...
  • 0

    likes

    dcyphr-d by David Chen on 2020-06-18
    AbstractThe ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium has systematically documented the variation in whole genomes associated with cancer across 38 tumour types and 2,658 whole cancer genomes. Most cancer genomes will experience 4 to 5 driver mutations in the whole genome. About 5% of cancer genomes do not have any identified driver mutations, which suggests that research towards cancer driver mutations is incomplete. Both common and rare variants of mutations, such as point mut...
  • 0

    likes

    dcyphr-d by Christina Hijiya on 2020-06-18
    AbstractMachine learning may be used as an alternative to traditional alignment-based approaches to identify new anti-microbial resistance (AMR) genes, especially when microbes cannot be grown in labs. In a previous study, the researchers created an algorithm that identified AMR genes using protein characteristics, called “features,” in Gram-negative bacteria using machine learning. In this study, the researchers show that this algorithm also works for Gram-positive bacteria, identifying AMR gen...
  • 0

    likes

    dcyphr-d by David Chen on 2020-06-18
    AbstractPrevious research has examined mutational signatures in terms of single base substitutions. Further classification of small mutational events can provide a systematic and thorough analysis of the landscape of mutations that exist in cancer genomes. SigProfilerMatrixGenerator is a tool designed to analyze and visualize the mutational patterns found in cancer genomes. The tool produces fourteen matrices, each comprised of distinct classifications for single base substitutions, double base ...