The NIBLSE community is coordinating an effort to collect, customize, and disseminate high quality bioinformatics learning resources appropriate for undergraduate life science courses. Learning resources in this collection are organized below by NIBLSE Core Competencies; see the NIBLSE Core Competency page for full descriptions.
Keith Johnson, Adam Kleinschmit, Jill Rulfs, William (Bill) Morgan
Version: 3.0
Through this 4-part bioinformatics case study, students will be led through the forensic analysis of putative Yeti artifacts based on published findings.
This Critical Guide in the Introduction to Bioinformatics series provides a brief outline of the Protein Data Bank – the PDB – the world’s primary repository of biological macromolecular structures.
This Critical Guide in the Introduction to Bioinformatics series provides an overview of the BLAST similarity search tool, briefly examining the underlying algorithm and its rise to popularity.
Daniel Barker, Heleen Plaisier, Stevie Anne Bain, Teresa Attwood
Version: 1.0
This Practical Guide in the Bringing Bioinformatics into the Classroom series introduces simple bioinformatics approaches for database searching and sequence analysis.
This laboratory module is a modification of the original published on CourseSource with a focus on plant biology. In the final activity, students conduct a BLAST to compare histone protein sequences between Arabidopsis, moss and yeast.
Adam Idica, Jordan Thompson, Irene Munk Pedersen, Pavan Kadandale
Version: 1.0
In this lesson, we describe an easily adaptable lab module that can be used in existing undergraduate molecular biology lab courses to conduct authentic scientific research, published in CourseSource
Mark Phillip Peterson, Jacob T Malloy, Vincent P Buonaccorsi, James H Marden
Version: 1.0
This lesson plan was created to teach RNAseq analysis as a part of GCAT-SEEK network. It is provided here, both in finished form and with the modifiable source code, to allow flexible adaptation to various classroom settings, published in...
In this four- part guided activity, students will learn about the structure and function of human autosomal and sex chromosomes, view and interpret gene maps, and gain familiarity with basic bioinformatics resources and data through use of the...
bioinformatics, NIBLSE, CourseSource, autosome, homologous chromosomes, homologous recombination, sex chromosome, sex determination, sex reversal mutations, introductory, Lab, Online course, Teaching material, Lecture, Undergraduate, Majors, 1 Hour, More than 1 hour, C1. Role of bioinformatics, C4. Bioinformatics tools, Recommended by NIBLSE
This module is a computer-based introduction to bioinformatics resources. This easy-to-adopt module weaves together several important bioinformatic tools so students can grasp how each is used in answering research questions. Published in CBE-LSE
Modules showing how the NCBI database classifies and organizes information on DNA sequences, evolutionary relationships, and scientific publications. And a module working to identify a nucleotide sequence from an insect endosymbiont by using BLAST
NCBI, NIBLSE, DNA, BLAST, nucleotide sequencing, Teaching material, Undergraduate, Less than 1 hour, C1. Role of bioinformatics, C4. Bioinformatics tools, C5. Data retrieval, Recommended by NIBLSE
behavior, bioinformatics, NIBLSE, drosophila, genetic basis, fruit flies, introductory, Lab, Teaching material, Undergraduate, Majors, More than 1 hour, C1. Role of bioinformatics, C4. Bioinformatics tools, C5. Data retrieval, Recommended by NIBLSE
Jason Williams, Ray A. Enke, Oliver Hyman, Emily Lescak, Sam S Donovan, William Tapprich, Elizabeth F Ryder
Version: 2.0
This is a bioinformatics exercise using the DNA Subway Blue Line, a user-friendly pipeline of bioinformatics tools, to analyze a collection of mosquito DNA bar-code sequences.
phylogenetics, NIBLSE, DNA Barcoding, DNA sequence, BLAST, multiple sequence alignment, C1. Role of bioinformatics, C2. Computational concepts, C4. Bioinformatics tools, C5. Data retrieval, C8. Data types, Incubated at NIBLSE
phylogenetics, introductory, Lab, bioinformatics, Teaching material, High School, Undergraduate, NIBLSE, DNA Barcoding, DNA sequence, BLAST, multiple sequence alignment, DNA Subway, Advanced, Extended Project, C1. Role of bioinformatics, C2. Computational concepts, C4. Bioinformatics tools, C5. Data retrieval, C8. Data types
simulation, ecology, introductory, NetLogo, agent-based modeling, agent-based model, Lab, bioinformatics, predator-prey, Teaching material, High School, Undergraduate, NIBLSE, Less than 1 hour, C1. Role of bioinformatics, C6. Models, Reviewed at NIBLSE, agent based modleing
In this activity you will study aspects of sequence evolution by working with a set of HIV sequence data from 15 different subjects (Markham, et al., 1998). You will first learn about the dataset, then study the possible sources of HIV for these...
Keith Johnson, Adam Kleinschmit, Jill Rulfs, William (Bill) Morgan
Version: 3.0
Through this 4-part bioinformatics case study, students will be led through the forensic analysis of putative Yeti artifacts based on published findings.
This Critical Guide in the Introduction to Bioinformatics series provides a brief outline of the Protein Data Bank – the PDB – the world’s primary repository of biological macromolecular structures.
This Critical Guide in the Introduction to Bioinformatics series provides an overview of the BLAST similarity search tool, briefly examining the underlying algorithm and its rise to popularity.
This laboratory module is a modification of the original published on CourseSource with a focus on plant biology. In the final activity, students conduct a BLAST to compare histone protein sequences between Arabidopsis, moss and yeast.
This adaptation of the sequence similarity resource provides biology students with a basic set of bioinformatics concepts and tools. These concepts and tools are used to explore relationships between Ebola virus strains.
Adam Kleinschmit, Benita Brink, Steven Roof, Carlos Christopher Goller, Sabrina Robertson
Version: 5.0
This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.
Mark Phillip Peterson, Jacob T Malloy, Vincent P Buonaccorsi, James H Marden
Version: 1.0
This lesson plan was created to teach RNAseq analysis as a part of GCAT-SEEK network. It is provided here, both in finished form and with the modifiable source code, to allow flexible adaptation to various classroom settings, published in...
Tony Weisstein, Elena Gracheva, Zane Goodwin, Zongtai Qi, Wilson Leung, Christopher D. Shaffer, Sarah C.R. Elgin
Version: 1.0
A lesson in which students will understand the basic structure of an HMM, the types of data used in ab initio gene prediction, and its consequent limitations.
This module is a computer-based introduction to bioinformatics resources. This easy-to-adopt module weaves together several important bioinformatic tools so students can grasp how each is used in answering research questions. Published in CBE-LSE
Jason Williams, Ray A. Enke, Oliver Hyman, Emily Lescak, Sam S Donovan, William Tapprich, Elizabeth F Ryder
Version: 2.0
This is a bioinformatics exercise using the DNA Subway Blue Line, a user-friendly pipeline of bioinformatics tools, to analyze a collection of mosquito DNA bar-code sequences.
phylogenetics, NIBLSE, DNA Barcoding, DNA sequence, BLAST, multiple sequence alignment, C1. Role of bioinformatics, C2. Computational concepts, C4. Bioinformatics tools, C5. Data retrieval, C8. Data types, Incubated at NIBLSE
phylogenetics, introductory, Lab, bioinformatics, Teaching material, High School, Undergraduate, NIBLSE, DNA Barcoding, DNA sequence, BLAST, multiple sequence alignment, DNA Subway, Advanced, Extended Project, C1. Role of bioinformatics, C2. Computational concepts, C4. Bioinformatics tools, C5. Data retrieval, C8. Data types
This Critical Guide in the Introduction to Bioinformatics series provides a brief outline of the Protein Data Bank – the PDB – the world’s primary repository of biological macromolecular structures.
This Critical Guide in the Introduction to Bioinformatics series provides an overview of the BLAST similarity search tool, briefly examining the underlying algorithm and its rise to popularity.
Mark Phillip Peterson, Jacob T Malloy, Vincent P Buonaccorsi, James H Marden
Version: 1.0
This lesson plan was created to teach RNAseq analysis as a part of GCAT-SEEK network. It is provided here, both in finished form and with the modifiable source code, to allow flexible adaptation to various classroom settings, published in...
Tony Weisstein, Elena Gracheva, Zane Goodwin, Zongtai Qi, Wilson Leung, Christopher D. Shaffer, Sarah C.R. Elgin
Version: 1.0
A lesson in which students will understand the basic structure of an HMM, the types of data used in ab initio gene prediction, and its consequent limitations.
This module is a computer-based introduction to bioinformatics resources. This easy-to-adopt module weaves together several important bioinformatic tools so students can grasp how each is used in answering research questions. Published in CBE-LSE
Keith Johnson, Adam Kleinschmit, Jill Rulfs, William (Bill) Morgan
Version: 3.0
Through this 4-part bioinformatics case study, students will be led through the forensic analysis of putative Yeti artifacts based on published findings.
This Critical Guide in the Introduction to Bioinformatics series provides an overview of the BLAST similarity search tool, briefly examining the underlying algorithm and its rise to popularity.
This Practical Guide in the Bringing Bioinformatics into the Classroom series introduces the idea of computers as tools to help understand aspects of biology.
Daniel Barker, Heleen Plaisier, Stevie Anne Bain, Teresa Attwood
Version: 1.0
This Practical Guide in the Bringing Bioinformatics into the Classroom series introduces simple bioinformatics approaches for database searching and sequence analysis.
National Center for Case Study Teaching in Science resource on the 2014 Ebola epidemic. This resource is also included in the NIBLSE Learning Resource Collection
infectious disease, experimental design, bioinformatics, Ebola, NIBLSE, Case It!, PCR, BLAST, multiple sequence alignment, Published in National Center for Case Study Teaching in Science, polymerase chain reaction, febrile illness, virus, ELISA, enzyme linked immunosorbent assay, filovirus, Africa, introductory, Teaching material, Lecture, High School, Undergraduate, Majors, Non-majors, Extended Project, C4. Bioinformatics tools, C5. Data retrieval, C9. Implications, Recommended by NIBLSE
The Genome Solver Project began as a way to teach faculty some basic skills in bioinformatics - no coding or scripting. These Lessons also work well in the undergraduate classroom, culminating with an authentic community research project.
This laboratory module is a modification of the original published on CourseSource with a focus on plant biology. In the final activity, students conduct a BLAST to compare histone protein sequences between Arabidopsis, moss and yeast.
This adaptation of the sequence similarity resource provides biology students with a basic set of bioinformatics concepts and tools. These concepts and tools are used to explore relationships between Ebola virus strains.
Adam Kleinschmit, Benita Brink, Steven Roof, Carlos Christopher Goller, Sabrina Robertson
Version: 5.0
This laboratory module, published on CourseSource, leads introductory biology students in the exploration of a basic set of bioinformatics concepts and tools.
Adam Idica, Jordan Thompson, Irene Munk Pedersen, Pavan Kadandale
Version: 1.0
In this lesson, we describe an easily adaptable lab module that can be used in existing undergraduate molecular biology lab courses to conduct authentic scientific research, published in CourseSource
This lesson is a five-week series of laboratory activities designed to help students transition from applying lower order thinking skills to the central dogma to applying higher-order thinking skills.
Mark Phillip Peterson, Jacob T Malloy, Vincent P Buonaccorsi, James H Marden
Version: 1.0
This lesson plan was created to teach RNAseq analysis as a part of GCAT-SEEK network. It is provided here, both in finished form and with the modifiable source code, to allow flexible adaptation to various classroom settings, published in...
In this four- part guided activity, students will learn about the structure and function of human autosomal and sex chromosomes, view and interpret gene maps, and gain familiarity with basic bioinformatics resources and data through use of the...
bioinformatics, NIBLSE, CourseSource, autosome, homologous chromosomes, homologous recombination, sex chromosome, sex determination, sex reversal mutations, introductory, Lab, Online course, Teaching material, Lecture, Undergraduate, Majors, 1 Hour, More than 1 hour, C1. Role of bioinformatics, C4. Bioinformatics tools, Recommended by NIBLSE
bioinformatics, NCBI, NIBLSE, BLAST, Published in National Center for Case Study Teaching in Science, colon cancer, pedigree, genetic testing, APC, introductory, Teaching material, Undergraduate, Majors, C4. Bioinformatics tools, C5. Data retrieval, Recommended by NIBLSE
This module is a computer-based introduction to bioinformatics resources. This easy-to-adopt module weaves together several important bioinformatic tools so students can grasp how each is used in answering research questions. Published in CBE-LSE
Modules showing how the NCBI database classifies and organizes information on DNA sequences, evolutionary relationships, and scientific publications. And a module working to identify a nucleotide sequence from an insect endosymbiont by using BLAST
NCBI, NIBLSE, DNA, BLAST, nucleotide sequencing, Teaching material, Undergraduate, Less than 1 hour, C1. Role of bioinformatics, C4. Bioinformatics tools, C5. Data retrieval, Recommended by NIBLSE
behavior, bioinformatics, NIBLSE, drosophila, genetic basis, fruit flies, introductory, Lab, Teaching material, Undergraduate, Majors, More than 1 hour, C1. Role of bioinformatics, C4. Bioinformatics tools, C5. Data retrieval, Recommended by NIBLSE
Jason Williams, Ray A. Enke, Oliver Hyman, Emily Lescak, Sam S Donovan, William Tapprich, Elizabeth F Ryder
Version: 2.0
This is a bioinformatics exercise using the DNA Subway Blue Line, a user-friendly pipeline of bioinformatics tools, to analyze a collection of mosquito DNA bar-code sequences.
phylogenetics, NIBLSE, DNA Barcoding, DNA sequence, BLAST, multiple sequence alignment, C1. Role of bioinformatics, C2. Computational concepts, C4. Bioinformatics tools, C5. Data retrieval, C8. Data types, Incubated at NIBLSE
phylogenetics, introductory, Lab, bioinformatics, Teaching material, High School, Undergraduate, NIBLSE, DNA Barcoding, DNA sequence, BLAST, multiple sequence alignment, DNA Subway, Advanced, Extended Project, C1. Role of bioinformatics, C2. Computational concepts, C4. Bioinformatics tools, C5. Data retrieval, C8. Data types
In this activity you will study aspects of sequence evolution by working with a set of HIV sequence data from 15 different subjects (Markham, et al., 1998). You will first learn about the dataset, then study the possible sources of HIV for these...
In this computer lab module, students learn how to process an RNA-seq data set to identify differentially expressed genes (DEGs). The samples for this data set were collected from yeast cells expressing either a control gene or a pathogen...
