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Representing DNA for Machine Learning Algorithms: A Primer on One-Hot, Binary, and Integer Encodings
Peer reviewed
Direct linkYash Munnalal Gupta; Satwika Nindya Kirana; Somjit Homchan – Biochemistry and Molecular Biology Education, 2025
This short paper presents an educational approach to teaching three popular methods for encoding DNA sequences: one-hot encoding, binary encoding, and integer encoding. Aimed at bioinformatics and computational biology students, our learning intervention focuses on developing practical skills in implementing these essential techniques for…
Descriptors: Science Instruction, Teaching Methods, Genetics, Molecular Biology
Burian, Alexis N.; Zhao, Wufan; Lo, Te-Wen; Thurtle-Schmidt, Deborah M. – Biochemistry and Molecular Biology Education, 2021
To fully appreciate genetics, one must understand the link between genotype (DNA sequence) and phenotype (observable characteristics). Advances in high-throughput genomic sequencing technologies and applications, so-called "-omics," have made genetic sequencing readily available across fields in biology from applications in…
Descriptors: Genetics, Science Instruction, Teaching Methods, Biology
Kocemba-Pilarczyk, Kinga A.; Bentke-Imiolek, Anna; Dudzik, Paulina – Biochemistry and Molecular Biology Education, 2021
The aim of this online workshop is to familiarize biomedical faculties students with the principle of RT-PCR method. The following assumption is made, students participating in the workshop: (1) are already familiar with the principle of PCR reaction; (2) can distinguish PCR from RT-PCR; (3) know the basic possibilities of using the above…
Descriptors: Medical Students, Biochemistry, Genetics, COVID-19
Naicker, Ramona – Education for Information, 2022
Racial bias in research impacts a study's relevancy, validity and reliability, though presently this aspect is not addressed in critical appraisal tools, and consequently appraisers may not take racial bias into account when assessing a paper's quality. Drawing on critical race theory (CRT) tenets that racism is ubiquitous and race a social…
Descriptors: Racism, Critical Race Theory, Disproportionate Representation, Minority Groups
Ouyang, Liming; Zhang, Huizhan; Zhang, Xuexin; Wu, Haizhen – Biochemistry and Molecular Biology Education, 2019
Genomics is a core course for bioscience-majored undergraduates in many universities. However, the teaching of genomics faces many challenges such as the need for rapid updating of related knowledge, content overlap between genomics and molecular biology, lack of motivation of students in the traditional passive classroom-learning model, the…
Descriptors: Genetics, Science Instruction, Majors (Students), Undergraduate Students
Widaman, Keith F.; Helm, Jonathan L.; Castro-Schilo, Laura; Pluess, Michael; Stallings, Michael C.; Belsky, Jay – Psychological Methods, 2012
Re-parameterized regression models may enable tests of crucial theoretical predictions involving interactive effects of predictors that cannot be tested directly using standard approaches. First, we present a re-parameterized regression model for the Linear x Linear interaction of 2 quantitative predictors that yields point and interval estimates…
Descriptors: Regression (Statistics), Predictor Variables, Models, Equations (Mathematics)
White, Brian T. – American Biology Teacher, 2012
The Virtual Genetics Lab II (VGLII) is an improved version of the highly successful genetics simulation software, the Virtual Genetics Lab (VGL). The software allows students to use the techniques of genetic analysis to design crosses and interpret data to solve realistic genetics problems involving a hypothetical diploid insect. This is a brief…
Descriptors: Computer Software, Genetics, Computer Simulation, Science Education
Schendel, Diana E.; Bresnahan, Michaeline; Carter, Kim W.; Francis, Richard W.; Gissler, Mika; Grønborg, Therese K.; Gross, Raz; Gunnes, Nina; Hornig, Mady; Hultman, Christina M.; Langridge, Amanda; Lauritsen, Marlene B.; Leonard, Helen; Parner, Erik T.; Reichenberg, Abraham; Sandin, Sven; Sourander, Andre; Stoltenberg, Camilla; Suominen, Auli; Surén, Pål; Susser, Ezra – Journal of Autism and Developmental Disorders, 2013
The International Collaboration for Autism Registry Epidemiology (iCARE) is the first multinational research consortium (Australia, Denmark, Finland, Israel, Norway, Sweden, USA) to promote research in autism geographical and temporal heterogeneity, phenotype, family and life course patterns, and etiology. iCARE devised solutions to challenges in…
Descriptors: Autism, Epidemiology, International Cooperation, Consortia
Download full textNarli, Serkan; Sinan, Olcay – Educational Sciences: Theory and Practice, 2011
Individuals' thoughts and attitudes towards biotechnology have been investigated in many countries. A Likert-type scale is the most commonly used scale to measure attitude. However, the weak side of a likert-type scale is that different responses may produce the same score. The Rough set method has been regarded to address this shortcoming. A…
Descriptors: Measures (Individuals), Genetics, Biotechnology, Engineering
Fidler, Deborah; Most, David; Philofsky, Amy – Down Syndrome Research and Practice, 2009
Individuals with Down syndrome are predisposed to show a specific behavioural phenotype, or a pattern of strengths and challenges in functioning across different domains of development. It is argued that a developmental approach to researching the Down syndrome behavioural phenotype, including an examination of the dynamic process of the unfolding…
Descriptors: Down Syndrome, Behavior Problems, Developmental Psychology, Genetics
Newman, Dina L.; Catavero, Christina M.; Wright, L. Kate – CBE - Life Sciences Education, 2012
Cellular processes that rely on knowledge of molecular behavior are difficult for students to comprehend. For example, thorough understanding of meiosis requires students to integrate several complex concepts related to chromosome structure and function. Using a grounded theory approach, we have unified classroom observations, assessment data, and…
Descriptors: Genetics, Grounded Theory, Data Analysis, Concept Teaching
Clark, Mary Anne – Innovate: Journal of Online Education, 2009
Mary Anne CLark describes the organization and uses of Genome Island, a virtual laboratory complex constructed in Second Life. Genome Island was created for teaching genetics to university undergraduates but also provides a public space where anyone interested in genetics can spend a few minutes, or a few hours, interacting with genetic…
Descriptors: Pilot Projects, Genetics, Data Analysis, Biological Sciences
Belmonte, Matthew K.; Mazziotta, John C.; Minshew, Nancy J.; Evans, Alan C.; Courchesne, Eric; Dager, Stephen R.; Bookheimer, Susan Y.; Aylward, Elizabeth H.; Amaral, David G.; Cantor, Rita M.; Chugani, Diane C.; Dale, Anders M.; Davatzikos, Christos; Gerig, Guido; Herbert, Martha R.; Lainhart, Janet E.; Murphy, Declan G.; Piven, Joseph; Reiss, Allan L.; Schultz, Robert T.; Zeffiro, Thomas A.; Levi-Pearl, Susan; Lajonchere, Clara; Colamarino, Sophia A. – Journal of Autism and Developmental Disorders, 2008
Data sharing in autism neuroimaging presents scientific, technical, and social obstacles. We outline the desiderata for a data-sharing scheme that combines imaging with other measures of phenotype and with genetics, defines requirements for comparability of derived data and recommendations for raw data, outlines a core protocol including…
Descriptors: Autism, Genetics, Measurement Techniques, Data Analysis
Nadolski, Jeremy; Smith, Lee Ann – PRIMUS, 2010
As technology and science advance, the boundary between the disciplines begins to blur, emphasizing that it is now, more than ever, a requirement to have a solid background in multiple fields to fully understand emerging scientific advances. As faculty, we need to equip our undergraduate students not only with an introduction to these modern…
Descriptors: Undergraduate Students, Student Research, Data Analysis, Teaching Methods
Teixeira, Miguel C.; Santos, Pedro M.; Rodrigues, Catarina; Sa-Correia, Isabel – Biochemistry and Molecular Biology Education, 2009
Expression proteomics has become, in recent years, a key genome-wide expression approach in fundamental and applied life sciences. This postgenomic technology aims the quantitative analysis of all the proteins or protein forms (the so-called proteome) of a given organism in a given environmental and genetic context. It is a challenge to provide…
Descriptors: Foreign Countries, College Instruction, Biotechnology, Engineering
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