LibGuides: IB Biology: Internal Assessment: Datasets by Topic

Data Sets

You can find DNA sequences, amino acid sequences, SNPs (single nucleotide polymorphisms). genes, and other related databases in the links below. Most are from the National Center for Biotechnology Information, part of the U.S. National Library of Medicine.

BLAST
he Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.
dbSNP
Database of single nucleotide polymorphisms (SNPs) and multiple small-scale variations that include insertions/deletions, microsatellites, and non-polymorphic variants.
European Bioinformatics Institute (EMBL-EBI)
The world’s most comprehensive range of freely available and up-to-date molecular data resources."Developed in collaboration with our colleagues worldwide, our services let you share data, perform complex queries and analyse the results in different ways. You can work locally by downloading our data and software, or use our web services to access our resources programmatically."
Gene
This database integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
NCBI Databases
National Center for Biotechnology Information, U.S. National Library of Medicine. Literature, Genes, Genetics, Proteins, Genomes, Chemicals
NWABR
This curriculum unit from the Northwest Association for Biomedical Research explores how bioinformatics is applied to genetic testing. Specifically, the bioinformatics tools of BLAST and Cn3D are used to investigate the genetic and molecular consequences of a mutation to the Breast Cancer Susceptibility 1 (BRCA1) gene.
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Cn3D ("see in 3D") is a helper application for your web browser that allows you to view 3-dimensional structures from NCBI's Entrez Structure database. Cn3D simultaneously displays structure, sequence, and alignment, and also has annotation and alignment editing features.
Genome
This resource organizes information on genomes including sequences, maps, chromosomes, assemblies, and annotations.
Nucleotide
The Nucleotide database is a collection of sequences from several sources, including GenBank (an annotated collection of all publicly available DNA sequences), Reference Sequence (RefSeq - a collection of sequences, including genomic DNA, transcripts, and proteins), TPA (tissue-type plasminogen activator) and PDB (Protein Data Bank).
Protein
The Protein database is a collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt (a protein sequence database), PIR (Protein Information Resource), PRF (Protein Research Foundation database of amino acid sequences of peptides and proteins), and PDB. Protein sequences are the fundamental determinants of biological structure and function.
RCSB PDB - Protein Data Bank
This resource is powered by the Protein Data Bank archive-information about the 3D shapes of proteins, nucleic acids, and complex assemblies that helps students and researchers understand all aspects of biomedicine and agriculture, from protein synthesis to health and disease. The Research Collaboratory for Structural Bioinformatics (RCSB) Protein Data Bank (PDB) curates and annotates PDB data. The RCSB PDB builds upon the data by creating tools and resources for research and education in molecular biology, structural biology, computational biology, and beyond.

GOES
Portal for GOES (Geostationary Operational Environmental Satellite) environmental data. GOES takes the pictures of clouds used by the National Weather Service to watch out for severe storms and carries instruments to measure atmospheric temperature and moisture, to monitor the particles and fields around the spacecraft, to help search and rescue operations, and to echo remote data collection platforms (e.g. buoys).
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NOTE: Message posted on the site: "GONE OUT OF SERVICE / This site has stopped producing GOES images.." This site is still a source for many links to historical GOES data.
NOAA Satellite and Information Service
Provides secure and timely access to global environmental data and information from satellites and other sources

EDC: Oceans of Data Institute
ODI (a division of Education Development Center (EDC)) provides students access to data collected by migrating marine animals, Earth-orbiting satellites, and drifting buoys, as well as a set of data analysis tools that can be used to take measurements and look for patterns in these complex data sets.
Ocean Tracks
Ocean Tracks provides access to authentic data collected by migrating marine animals, drifting buoys, and satellites, along with tools that allow you to display and analyze these data to investigate current and important scientific questions about animal interactions with the ocean environment. The Ocean Tracks website was created by EDC's Oceans of Data Institute and Stanford University.
Tagging of Pelagic Predators
ceanographic datasets, to marine life observation. By combining data from a diverse number of highly migratory species, and overlaying them with oceanographic data, it is possible to glimpse the processes that influence how open ocean ecosystems work.

The Global Tropical Moored Buoy Array
https://s3.amazonaws.com/libapps/accounts/14581/images/SOCCOM_LOGO.png
NOAA: Data in the Classroom
NOAA Data in the Classroom makes data from several federal environmental agencies available online for use in studying El Niño, sea level, water quality, ocean acidification, and coral bleaching.
SOCCOM (portal for all Argo Data)
The Southern Ocean Carbon and Climate Observations and Modeling (SOCCOM) program at Princeton University maintains a portal for data from all ARGO ocean drifter data collectors worldwide. ARGO is an international program the will deploy some 3000 profiling drifters in the world oceans for purposes of examining the global scale of circulation and air-sea interaction, with the goal of improving climate models and predictions.
University of Washington Ocean Drifter Data
UW data from their ocean drifter data collectors. These floats have been deployed as the beginning step in the US ARGO program. ARGO is an international program for deploying profiling drifters in the world oceans.

eBird
is the world’s largest biodiversity-related citizen science project, with more than 100 million bird sightings contributed each year by eBirders around the world. eBird data document bird distribution, abundance, habitat use, and trends through checklist data collected within a simple, scientific framework. Birders enter when, where, and how they went birding, and then fill out a checklist of all the birds seen and heard during the outing. Access this database by creating an account with a username and password. eBird includes population data from The Great Backyard Bird Count, maps of citizen-created bird habitat from Habitat Network. bird songs and calls from Macaulay Library, nest camera data from NestWatch, and sightings at bird feeders from Project FeederWatch. These citizen science projects at the Cornell Lab of Ornithology provide a way for people to learn about birds, habitat, science, and conservation while contributing to real scientific studies.
Great Backyard Bird Count
Participants are asked to count birds for as little as 15 minutes (or as long as they wish) on one or more days of the four-day event and report their sightings online at birdcount.org. Each checklist submitted during the GBBC helps researchers at the Cornell Lab of Ornithology and the National Audubon Society learn more about how birds are doing, and how to protect them and the environment we share.Citizen scientists count for as little as 15 minutes in their own backyards to help Audubon expand their understanding of birds
Habitat Network
Habitat Network is a citizen science project designed to cultivate a richer understanding of wildlife habitat, for both professional scientists and people concerned with their local environments. They collect data by asking individuals across the country to literally draw maps of their backyards, parks, farms, favorite birding locations, schools, and gardens. Participants then create new habitats for birds, then update their maps. The goal is to help people make better decisions about how to manage landscapes sustainably.
Macaulay Library
An extensive scientific archive of natural history audio, video, and photographs. Although the Macaulay Library is best known for its collection of bird songs and calls, the collection also includes amphibians, fishes, and mammals, and the library preserves recordings of each species’ behavior and natural history.

Neotoma Paleoecology Database
An online hub for data, research, education, and discussion about paleoenvironments. Users can find information efficiently by searching the database on spatial, temporal, and metadata criteria; interactively browse and visualize live data and metadata; get data and information in a variety of useful formats (e.g., downloads, reports, graphics).
The Paleobioloby Database
A public resource for paleontological data, providing global, collection-based occurrence and taxonomic data for organisms of all geological ages, as well data services to allow easy access to data.

Google Dataset Search

Google Dataset Search
The Dataset Search platform trawls the millions of open data repositories on the web for desired datasets, looking on publisher sites, digital libraries, and on author's personal web pages, and more. Google relies on dataset publishers to correctly label their datasets with the appropriate information, such as who created the dataset, when it was published, how the data was collected, what the terms are for using the data, etc.

Google's Dataset Search platform enables users to find datasets stored across the Web through a simple keyword search. The tool surfaces information about datasets hosted in thousands of repositories across the Web, making these datasets universally accessible and useful.

Google believes that this project will have the additional benefits of a) creating a data sharing ecosystem that will encourage data publishers to follow best practices for data storage and publication and b) giving scientists a way to show the impact of their work through citation of datasets that they have produced.

As more dataset repositories use schema.org and similar standards to describe their datasets, the variety and coverage of datasets that users find in Dataset Search, will continue to grow.