Bioinformatics, Virtual Labs, and the Human Genome Project

This session introduces bioinformatics using a case study of pathogenic bacterial identification ... (more)

This session introduces bioinformatics using a case study of pathogenic bacterial identification via a Howard Hughes Medical Institute's virtual lab and NCBI web database searches. Another goal is to get the students thinking, writing and talking about the impact of the human genome project. Our students do the exercise independently coming together in the laboratory to present and discuss their findings--this feature makes the exercise feasible for large or small classes with limited laboratory computer resources. The sub-theme of this session is the use of virtual laboratories (vlabs) re-enforcing scientific concepts and methods to supplement lectures, tutorials or "wet" labs. (less)

Subject:

Science and Technology

Material Type:

Activities and Labs

Case Study

Lesson Plans

Provider:

Howard Hughes Medical Institute

University of Toronto

Provider Set:

Association for Biology Laboratory Education (ABLE)

Association for Biology Laboratory Education (ABLE)

Author:

Anne L. Cordon

Donna Messersmith

Gene Gateway: Exploring Genes and Genetic Disorders

This collection of guides and tutorials is intended to help users take ... (more)

This collection of guides and tutorials is intended to help users take advantage of of online data sources from the Human Genome Project for learning about genetic disorders, genes, and proteins. Resources include the Gene Gateway Workbook, a downloadable tutorial consisting of activities with screenshots and instructions, that helps new users locate and use genetic-disorder and bioinformatics resources on the web. There are also resources for learning about genes and the proteins they encode; tips, tutorials, and terminology for using selected resources in the Genome Database Guide; a guide to nontechnical resources on genetic disorder descriptions and treatments; a human genome landmarks poster; and others. (less)

Subject:

Life Science

Material Type:

Data

Images and Illustrations

Instructional Material

Reference

Provider:

NSDL Staff

Provider Set:

Health Sciences Gateways and Resources

The Human Genome Project

Students learn about the Human Genome Project: the process, the functions of ... (more)

Students learn about the Human Genome Project: the process, the functions of sections of DNA code, how knowledge of the human genome is being applied to medicine, and about genetic variation. (less)

Subject:

Life Science

Material Type:

Instructional Material

Lesson Plans

Provider:

PBS LearningMedia

Provider Set:

PBS Learning Media: Multimedia Resources for the Classroom and Professional Development

Author:

National Science Foundation

WGBH Educational Foundation

Human Genome Project

This video segment from NOVA: "Cracking the Code of Life" looks at ... (more)

This video segment from NOVA: "Cracking the Code of Life" looks at the meaning and significance of the effort to decode the human genome. ***Access to Teacher's Domain content now requires free login to PBS Learning Media. (less)

Subject:

Science and Technology

Engineering

Life Science

Technology

Material Type:

Activities and Labs

Provider:

PBS LearningMedia

PBS Learning Media

Provider Set:

PBS Learning Media: Multimedia Resources for the Classroom and Professional Development

Teachers' Domain

Author:

National Science Foundation

WGBH Educational Foundation

Genomics and Its Impact on Science and Society: The Human Genome Project and Beyond (2008)

This site gives a detailed overview of the science of genetics, including ... (more)

This site gives a detailed overview of the science of genetics, including the Human Genome Project. An introduction helps visitors understand genomes, DNA, genes, chromosomes, and more. Other resources include online audio and video files about genetics and the Human Genome Project, images of genomes, current research news, a glossary, frequently asked questions, and a student page. (less)

Subject:

Science and Technology

Material Type:

Readings

Provider:

Oak Ridge National Laboratory

Provider Set:

U.S. Department of Energy

Human genomeSite: DNA Interactive (www.dnai.org)

The human genome following NCBI.

Subject:

Chemistry

Life Science

Material Type:

Images and Illustrations

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

The Science Scoop: The Human Genome Project

This fun Web site is part of OLogy, where kids can collect ... (more)

This fun Web site is part of OLogy, where kids can collect virtual trading cards and create projects with them. Here, they learn about the human genome project by clicking through an online slide show, hosted by kids, that answers these questions: What's a genome, anyway?What is the human genome project? What does it mean to me? (less)

Subject:

Science and Technology

Material Type:

Readings

Provider:

American Museum of Natural History

Provider Set:

American Museum of Natural History

Language & Life Sciences: Mapping the Human Genome

Rather than focus on the scientific details of this discovery, this chapter ... (more)

Rather than focus on the scientific details of this discovery, this chapter gives an overview of the important concepts related to DNA's initial discovery and later research conducted in this field. Teachers can use the lesson plans and materials to help students understand these fundamental concepts and gain a command of the vocabulary necessary to discuss them. Given the amazing advances in biological research and the new knowledge that has become available to human beings about their own biological makeup, it is important for students to know basic concepts related to DNA research and the human genome project. This following lesson provides a basic introduction to this topic in an interactive fashion. (less)

Subject:

Science and Technology

Social Sciences

Material Type:

Lesson Plans

Teaching and Learning Strategies

Provider:

U.S. Department of State, Bureau of Educational and Cultural Affairs

Provider Set:

U.S. Department of State

Author:

Donna M. Brinton, Christine Holten, Jodi L. Nooyen

How Genetic Disorders Are Inherited

Learn how genetic disorders are passed from parents to children as explained ... (more)

Learn how genetic disorders are passed from parents to children as explained in this excerpt from Blazing a Genetic Trail, from the Howard Hughes Medical Institute. ***Access to Teacher's Domain content now requires free login to PBS Learning Media. (less)

Subject:

Science and Technology

Life Science

Material Type:

Readings

Provider:

PBS LearningMedia

PBS Learning Media

Provider Set:

PBS Learning Media: Multimedia Resources for the Classroom and Professional Development

Teachers' Domain

Author:

National Science Foundation

WGBH Educational Foundation

Paper stack (Human Genome), still imageSite: DNA Interactive (www.dnai.org)

As represented by this huge stack of paper, the human genome contains ... (more)

As represented by this huge stack of paper, the human genome contains more than three billion nucleotides or DNA "letters." (less)

Subject:

Life Science

Material Type:

Images and Illustrations

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

Concept 41: DNA is only the beginning for understanding the human genome.

Discovering protein function is the next step in understanding the human genome.

Subject:

Life Science

Education

Material Type:

Images and Illustrations

Instructional Material

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

John Connolly (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

The human genome sequencingSite: DNA Interactive (www.dnai.org)

Interviewee: Ari Patrinos DNAi Location:Genome>the project>players>Competition and the media A race between ... (more)

Interviewee: Ari Patrinos DNAi Location:Genome>the project>players>Competition and the media A race between interesting individuals Ari Patrinos, director of the U.S. Department of Energy's sequencing effort and friend to the leaders of both projects, speaks about the media surrounding the Human Genome Project. (less)

Subject:

Chemistry

Life Science

Education

Material Type:

Instructional Material

Video Lectures

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

Human Genome Project Sequencing, 3D animation with basic narrationSite: DNA Interactive (www.dnai.org)

DNAi Location: Genome>Project>putting it together>Mapping the genome As represented by this huge ... (more)

DNAi Location: Genome>Project>putting it together>Mapping the genome As represented by this huge stack of paper, the human genome contains more than three billion nucleotides or DNA letters. The first stage of the public Human Genome Project focused on identifying marker sequences or unique tags (shown here in yellow) at regular intervals throughout this \"book of life.\" Once enough sequences were tagged, various blocks of the genome were allocated to different academic centers for sequencing. (less)

Subject:

Mathematics

Chemistry

Life Science

Material Type:

Images and Illustrations

Instructional Material

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

Human Genome Project logo / human figure in DNA, still imageSite: DNA Interactive (www.dnai.org)

Human Genome Project logo For more information about the Human Genome Program ... (more)

Human Genome Project logo For more information about the Human Genome Program visit http://www.ornl.gov/hgmis (less)

Subject:

Life Science

Material Type:

Images and Illustrations

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

The Human Genome Project: A Scientific and Ethical Overview

The issue-focused, peer-reviewed article ponders the discovery of the double helix 50 ... (more)

The issue-focused, peer-reviewed article ponders the discovery of the double helix 50 years ago, and how DNA databases freely distribute information on the human genome. It also shows how its use can lead to ethical issues, such as: germline engineering used solely for enhancement, the privacy of genetic information, mandatory genetic screening, and genetic testing of newborns. (less)

Subject:

Life Science

Technology

Social Sciences

Education

Material Type:

Reference

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

Marion L. Carroll, Ph.D., and Jay Ciaffa, Ph.D. (Xavier University of Louisiana;)

First reactions to the Human Genome Project, James WatsonSite: DNA Interactive (www.dnai.org)

Interviewee: James Watson DNAi Location:Genome>the project>players>Pros & cons First reaction: why the ... (more)

Interviewee: James Watson DNAi Location:Genome>the project>players>Pros & cons First reaction: why the human? Nobel Laureate James Watson, the first director of the Human Genome Project, talks about his first reaction to the idea. (less)

Subject:

Life Science

Social Sciences

Education

Material Type:

Instructional Material

Video Lectures

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

Human Genome Project sequencing, 3D animation with basic narrationSite: DNA Interactive (www.dnai.org)

DNAi Location: Genome>The Project>putting it together>Sequencing and assembly To begin the sequencing ... (more)

DNAi Location: Genome>The Project>putting it together>Sequencing and assembly To begin the sequencing process, several copies of a section of DNA (represented here as a page of text) are cleaved to produce smaller fragments. Although it looks fairly orderly, this step is small-scale \"shotgun,\" which creates numerous random fragments. Each fragment is sequenced, then computer programs align the overlap between fragments to build up an entire page. Marker sequences (shown in yellow) help establish the order of pages in the \"book of life.\" This methodical process produced huge amounts of data that have been used to virtually reassemble our genome. However, there are gaps. Repeat sequences are common in the human genome, so repeats from entirely different chromosome regions may be erroneously joined together. It will take many years to detect mismatches caused by the repeat sequences. Some regions, especially near the centromeres, may never be fully finished. (less)

Subject:

Mathematics

Chemistry

Geoscience

Life Science

Material Type:

Instructional Material

Interactive

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

The human genome: genes and non-coding DNA, 3D animation with basic narrationSite: DNA Interactive (www.dnai.org)

Think of how many letters fit on a single page and now ... (more)

Think of how many letters fit on a single page and now imagine a stack of pages three hundred feet tall. That's how much information is stored in the DNA inside every human cell: the entire human genome. If you sort through the three billion letters that make up the human genome, you find some surprising things. Only about 1% of the three billion letters directly codes for proteins. Of the rest, about 25% make up genes and their regulatory elements. The function of the remaining letters is still unclear. Some of it may be redundant information left over from our evolutionary past. (less)

Subject:

Chemistry

Life Science

Technology

Material Type:

Instructional Material

Interactive

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

The public Human Genome Project: mapping the genome, sequencing, and reassembly, 3D animationSite: DNA Interactive (www.dnai.org)

DNAi location: Genome>The Project>putting it together>Animations>Hierarchical shotgun (public) Mapping the genome AND ... (more)

DNAi location: Genome>The Project>putting it together>Animations>Hierarchical shotgun (public) Mapping the genome AND Sequencing and assembly This animation shows how the human genome was sequenced using the 'hierarchical shotgun' method of the public Human Genome Project. All the base pairs in our DNA are represented as letters on pieces of paper. (less)

Subject:

Chemistry

Life Science

Technology

Material Type:

Instructional Material

Interactive

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

David Micklos (Cold Spring Harbor Laboratory;DNA Learning Center X-AUDIENCE)

Elof Carlson (SUNY at Stony Brook;Biology Department X-AUDIENCE)

Garland Allen (Washington University at St. Louis;Biology Department X-AUDIENCE)

Jan Witkowski (Cold Spring Harbor Laboratory;Banbury Center X-AUDIENCE)

Paul Lombardo (University of Virginia;Center for Biomedical Ethics X-AUDIENCE)

Steven Selden (University of Maryland;Education Policy and Leadership Department X-AUDIENCE)

The Protein Kinase Complement of the Human Genome

We have catalogued the protein kinase complement of the human genome (the ... (more)

We have catalogued the protein kinase complement of the human genome (the í˘ŒóŒěkinomeí˘ŒóŒ) using public and proprietary genomic, complementary DNA, and expressed sequence tag (EST) sequences. This provides a starting point for comprehensive analysis of protein phosphorylation in normal and disease states, as well as a detailed view of the current state of human genome analysis through a focus on one large gene family. We identify 518 putative protein kinase genes, of which 71 have not previously been reported or described as kinases, and we extend or correct the protein sequences of 56 more kinases. New genes include members of well-studied families as well as previously unidentified families, some of which are conserved in model organisms. Classification and comparison with model organism kinomes identified orthologous groups and highlighted expansions specific to human and other lineages. We also identified 106 protein kinase pseudogenes. Chromosomal mapping revealed several small clusters of kinase genes and revealed that 244 kinases map to disease loci or cancer amplicons. (less)

Subject:

Life Science

Material Type:

Reference

Provider:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Provider Set:

BiosciEdNet (BEN): Digital Library Portal for Teaching and Learning in the Biological Sciences

Author:

D.B. Whyte (SUGEN Inc.;)

G. Manning (SUGEN Inc.;)

R. Martinez (SUGEN Inc.;)

S. Sudarsanam (Pharmacia Corporation;Genomics and Biotechnology)

T. Hunter (Salk Insitute;)