Bioinformatics Education Dissemination: Reaching Out, Connecting and Knitting-together

Projects Submitted by Workshop Participants

This list represents projects developed by participants in a variety of BEDROCK sponsored workshops which varied in length from 3 days to 9 days. Some are in preliminary form, others are more fully developed.

  1. The FtsH Proteases of Oryza sativa and Arabidopsis thaliana Ė Orthologs and Parologs?
  2. Molecular Visualization Powerpoint
  3. A Study of Tamarix, a Invasive Desert Species or, Another Juicy Hypothesis Bites the Dust
  4. Differential gene expression in breast carcinoma
  5. Using MAPPfinder to explore connections between microarray data sets, Gene Ontology, and biological pathways
  6. Using GenMAPP and MAPPFinder to analyze publicly available cancer microarray data.
  7. Three isoforms of human tissue plasminogen activator
  8. Functional Genetic Clusters
  9. Introducing Database Mining to Molecular Genetics Students (Juniors & Seniors)
  10. Bioinformatics in Introductory Biology
  11. Links and Resources
  12. Exploring Bioinformatics with Insulin
  13. Signal transduction molecules
  14. Comparison of alpha subunits of phycocyanins and phycoerythrins with the structure of Galdieria sulphuraria phycocyanin
  15. Comparision of Homeobox Domains: Plant vs. Engrailed
  16. Bioinformatic Assignments in Computer Science Courses
  17. Bioinformatics project in conservation genetics
  18. Development of a bioinformatics project for high school laboratories
  19. Changes in the V3 region of p120 that correlate with a rapid decline in CD4 count
  20. Genetic Diversity and Conservation of Pan troglodytes
  21. The highly conserved coronavirus RNA polymerase and SARS
  22. Molecular phylogeny of a chef salad
  23. A Comparison between the Structures of Human Like Chitinase and a bacterial Chitinase
  24. Using Microarray Technology to Explore Problems in Systems Biology.
  25. Influenza
  26. The Phylogenetic Tree Constructor
  27. GenMAPP and MAPPFinder for Systems Biology Education
  28. Bridges to Structure
  29. New Zealand Cyatheaceae Phylogenies?
  30. Systems Approaches to Adopting, Teaching and Learning Models
  31. Simulating Gene Expression using Netlogo
  32. Prion biology problem space: Mad cows, itchy sheep and protein structure
  33. Rice Phylogeny Revisited
  34. Campus Evolution
  35. Metabolic Pathways via Tom Sawyer
  36. Tribes within subspecies Pt Verus Chimps
  37. Analysis of Whippo Hypothesis
  38. Phylogenetic relationships among chimpanzee subspecies
  39. Analysis of Mitochondrial DNA from Chimpanzees in Tanzania
  40. Maintaining Chimp Genetic Diversity
  41. Molecular Evolution of West Nile Virus
  42. Helix-loop-helix: Simple is not Boring!
  43. Bioinformatic Investigation of Insulin Signalling System
  44. Antibiotic Resistance Project Space
  45. Introducing Phylogenetics
  46. The ABCs of Floral MADSness
  47. Icebreaker Introduction to Bioinformatics
  48. A bioinformatics simulation of a mutant workup from a model genetic organism
  49. Bioinformatics Introductory Module: Use of Bioinformatics Tools in Genome Assembly and Annotation
  50. Adaptation of HIV Problem Space to High School Students
  51. A Tutorial of Sequence Matching in Oracle
  52. Integrating genomics in teaching metabolism
  53. Mechanisms of Drug Resistance
  54. Evolutionary Relationship of Greenbug Biotypes
  55. Searching For New Phylogenetically-Informative Nuclear Genes in Bryophytes
  56. Mammalian Evolution Using IRBP Gene
  57. Undergraduate Exercises with Trp Cage
  58. What is the Evolutionary History and Function of GLP-1?
  59. Molecular Evolution: From Sequence to Structure to Function
  60. Heat Resistant Amylase
  61. Nitrogenase: Enzyme catalyzing N-fixation
  62. Aquaporins: Are regions of the protein conserved?
  63. Protein Structure of Snake Venom: A Phylogenetic Study
  64. Structural Analysis of Amino Acid Sequence Variation of Immunoglobulin Epsilon Heavy Chain
  65. Comparison of p53 Structure: Wild type vs. mutant
  66. Cuddling with your souieeee-tee: A bad case of the flu
  67. Hemoglobin: Soup to Nuts
  68. BRCA Mutations and Breast Cancer
  69. Verifying Morphologically Based Finch Taxonomy by Appeal to Sequence Data
  70. Is the Red Wolf Real?
  71. Fundamental methods of computer science and their application to bioinformatics
  72. Biomedical Case Studies
  73. Student Exploration of Water Transport
  74. Transferrins "R US! : An evolutionary look at changes in the structure of this protein
  75. Gene Sleuthing
  76. Going Green: Using GFP to Investigate Bioinformatics
  77. LIMPET: Leptin, an insular molecule physiologically investigates evolutionary theory.
  78. World Population: A Model Approach
  80. Get a Rise out of Life!
  81. Making Introductory Biology Labs Cooler: Data Acquisition and Analysis
  82. How does Antiretroviral Therapy Affect HIV Mutation?
  83. Water - A Coordinated Study Learning Community
  84. Exploring Cancer Incidence Rates: Creating the Multi-hit Model of Cancer in STELLA.
  85. javaFoodWeb: Bridging the gap between Excel and Niches
  86. Orbitals and Wave Functions
  87. Confessions of an innovator
  88. North Georgia College & State University Biology Curriculum Development
  89. Genomics: from gene to conserved function to disease
  90. Bio-Medical Informatics - From the Computer Programmer's Perspective
  91. Antigenic shift v. drift in avian and mammalian Sino-influenza type A viruses.
  92. Comparison of the Olfactory Receptor Genes in Canines and Primates
  93. Demonstration file
  94. PFK Through The Ages
  95. Creating a New Workspace: Genetic Diversity of Mycobacterium tuberculosis
  96. Visually Demonstrating the Principles of Protein Folding
  97. SARS: A Multi-disciplinary Exploration
  98. Bioinformatics Curriculum
  99. Exploring Phylogeny in the Introductory Microbiology Lab
  100. Using Bioinformatics to Investigate Evolution, Phylogeny, and Virulence in the Human Pathogen Clostridium difficile (with Brad Goodner, institute presenter, as a group member)
  101. Seeing the forest for the trees
  102. Fat chickens, fat people, fat chance?
  103. Microbial Ecology of Kentucky Bourbon
  104. Taking the Bite (Byte?) out of Phylogeny
  105. A laboratory unit investigating 2,4-dichlorophenoxyacetic acid degradation in soils
  106. Bad Hygiene or Bad Bug? (Investigation of C. difficile outbreak and toxicity using bioinformatics tools, case-based approach, and molecular genetics simulation using CaseIt software; linked with Project 2 above)
  107. Genetics in your Blood: Hemoglobin Workspace to Illustrate Basic Genetic Concepts
  108. Do HIV+ Rapid Progressors Show More Divergenece than Non-Progressors?
  109. Poster: The Puzzling Properties of the Permease (PPP)
  110. Scholarship of Teaching and Learning resources
  111. Projecting Presence of Pecans: Mining Environmental Data to Identify Ecological Limits of Species Distribution
  112. Malaria II - Microarray analysis tools
  113. Malaria I - Case study and bioinformatics activities
  114. STD Case It! The Soldier's Gift
  115. Green Scum Up the Bay:Using Linear Modeling to Analyze Algal Blooms in the Chesapeake Bay
  116. Citrus Canker Investigation Space
  117. Protein Folding in 3-d and 2-d
  118. Hedgehog-emony!
  119. Taking BioQUEST Home
  120. Interactions Among Dissolved Nitrogen, Phosphate, and Dissolved Oxygen at Several Sites in Chesapeake Bay in 2000.
  121. The Tree P's: The 'Pistemology of Phylogeny
  122. Of Pigs and People on the Potomac
  123. Using Esteem-style models to study two-species and three-species interactions in comparison with an in vitro situation
  124. Find The Fake Ones
  125. HIV Evolution During Infection
  126. RNA --> DNA --> RNA --> PROTEIN
  127. Globin Genes
  128. Comparative Genomics: The Globin Gene in Human and Bats
  129. Using mtDNA to trace human geographic origin
  130. RNA-Folding Programming Project for High-Performance Computing
  131. Interplay between Selective Pressure and Genetic Diversity of Viral Populations in HIV Patients
  132. Re-annotation of nitrate reductase gene cluster
  133. "Kefir Kommunity: Investigating the Population Composition and Dynamics of the Kefir Grain Consortium."
  134. Peanut Butter and Jelly Or Salmonella
  135. Conservation and Taxonomic Distribution of Arsenate Detoxification Proteins, ArsA, ArsB, and ArsC
  136. Microbes Spanning the World: Exploring Phylogenetic Relationships and Protein Structure
  137. Student Research in Microbial Biogeography: Introducing Bioinformatics Tools
  138. Bioinformatic modules for Biology instruction
  139. Global Malaria Problem Space
  140. A Consortium Approach for Introducing Bioinformatics to Undergraduates
  141. "A Microbiological and Bioinformatics Safari: Searching for Cellulolytic Prokaryotes from the Environment and Characterization of their Cellulase Genes."
  142. Incorporation of class discussions to strengthen bioinformatic concepts Example: Re-examining phylogenies, a discussion
  143. Microbial Mystery: Identification of Microbes Present in Soil
  145. Introduction to Interdisciplinary Problem Solving
  146. Using BLAST to investigate genes expressed during loblolly pine embryogenesis
  147. Avian Influenza
  148. Dolphin Phylogeny
  149. HIV Envelope Mutations and Onset of AIDS
  150. HIV Strain Variation in Africa
  151. Insulin binding to the receptor
  152. Acetylcholine Receptor Binding Toxins
  153. Molecule Informatics Portfolio
  154. Seeing the Trees Through the Forest : Arthropod phylogeny based on morphology and molecular data
  155. Anthrax toxin: Examining the relationship between structure and function
  156. Escherichia coli O157:H7 Outbreak from Fresh Spinach
  157. Protein Chronometers
  158. Distributions of Extinction Events through the Cenozoic
  159. Evolution within Australian Salmonella strains
  160. Click Clack - Milk Attack??
  161. Donít Kiss a Chicken in Cairo or Human and Avian Influenza Virus Hemagglutinin 5 Protein Phylogeny
  162. The Molecular Genetics Explorer: a simulation that unifies Genetics, Biochemistry, and Molecular Biology
  163. Food for Sex: or how to attract a pollinator.
  164. Lactase evolution problem space
  165. Pathway-Pondering: Metabolic Engineering Problem Space
  166. Modeling selection for lactase persistence in African pastoralist and agro-pastoralist societies
  167. Trees from the Seas
  168. Hyper-accumulation capability of Silene vulgaris in relation to its phylogeny
  169. Biostatistics Data & Lab Search Tool (BiDLaST)
  170. Global Health
  171. Desiccation Tolerance: Can Mosses Help Feed And Fuel The World
  172. Grant Project: Resurrecting Math
  173. Modeling haplotype mutation rates
  174. Cooperative Learning
  175. POSTER: Do other organisms have chalcone isomerase?
  176. What does that phylogeny really mean?
  177. Integrating (Comparing?) Plant and Animal Physiology
  178. Anthocyanin as an Acid/Base Indicator--Activity Series
  179. A Model of Factors Related to Tradeoffs in Cyanogenesis and Seed Production in Trifolium repens
  180. 4-H Presentation: Using Drugs 2CoPE
  181. BioMorph ESTEEM Module
  182. Ethnobotany as a Hook to Generate Interest in Plant Research
  183. A Model to Describe the Effect of the Timing of Herbivory on Subsequent Leaf Growth
  184. Spice Invaders
  185. An Exercise in Leaf Growth Modeling based on Wisconsin Fast Plants
  186. BlueberryBlues
  187. Resources from Yaffa Grossman
  188. MASE: A Model of Mutation and Selection: Evolution
  189. Insertion Events:Integrating Bioinformatics Into Existing Biology Courses
  190. Loss of Adhesion Phenotype Correlated with Loss of Conservation of Extracellular Region and C-terminus in Cadherin
  191. pfam01617Erhlichia
  192. Structural and Phylogenetic Relationships of Eukaryotic and Some Prokaryotic NAD+ and NADP+ Isocitrate Dehydrogenases
  193. Tryptophan Biosynthesis in Chlamydia
  194. Show Me the Way to Go Home: Evolution of chemotaxis proteins MCP and CheA in the transition from a free-living to pathogenic life style in Bordetella
  195. CRISPR: Clustered regularly interspaced short palindromic repeats
  196. Around the world in 800 proteorhodopsins
  197. Variations in among TrpG and TrpD among the Proteobacteria
  198. Distribution of an Extracellular Protein Motif Across the Domains
  199. A Metagenomic Analysis of Polymicrobial Environments in the Undergraduate Laboratory
  200. Incorporating inquiry using bioinformatics across the biology curriculum
  201. Introducing Bioinformatics Using the Nitrogen Cycle
  202. Introductory Course in Bioinformatics
  203. Demonstrating Biodiverstiy through Bioinformatics
  204. Preparing Students for Annotation Projects
  205. What's in a Genome?
  206. Workshop and Web Survey
  207. SNAC
  208. MWES Resources for Beijing Blue
  209. GK MC Resources for Beijing Blue
  210. RGKJJC Resources for Beijing Blue
  211. Beijing graphs
  212. spkmg Beijing Blue
  213. CMNSM Bejing Blue
  214. gp tt Beijing Blue
  215. KD and AB Beijing Blue
  216. In countries where male and female smoking rates differ, do life expectancies differ, too?
  217. What is the relationship between Breast Cancer Incidence and Gross Domestic Project (GDP)?
  218. The Inevitable Ones? Gas and Taxes
  219. Desiccation Tolerance: Phylogeny and Phylogeography Project
  220. Land Use Correlates
  221. Building our ESTEEM: Improving the Accessibility and Adoptability of ESTEEM Modules
  222. GoogleSites vs. MediaWiki
  223. Pharmacokinetics
  224. Pea Data for chi-square test
  225. ChocolateBarAlmondsData
  226. Chi square survey
  227. Revised Schedule
  228. Images from the workshop
  229. Data Analysis Survey
  230. Using test score data set for data mining, question generation, and data analysis
  231. Sample data on yeast growth
  232. Emu behavior data
  233. Fluorescent Redistribution after Photobleaching.
  234. Numbers Count Workshop at University of Tennessee - Knoxville on May 29-31, 2009
  235. Sparisoma radians data
  236. Tree Species Presence and Percent Composition, Central Park, NYC 1857-1982
  237. Peas and Chocolate
  238. Workshop Survey
  239. Comparison of 1999 and 2007 data for bluefish age vs. length
  240. Presentations at Workshop
  241. Assessment of the Potential Efficacy of Digestol in Enzyme Therapy
  242. Slimming down with an inhibitor?
  243. Looking at amino acid residue changes in alpha glucosidase.
  244. Making our own Digestol pill, Digest-All
  245. Amylase Inhibitors: What Are They Good For?
  246. A Bioquest Project: August 2009 Solving the Limitations of Endospore Breakdown by Beta-Amylase in Barley Plants to make Beer
  247. Tarui disease: One Letter is All it Takes
  248. Genetic disease and the human alpha-glucosidase gene
  249. Tooth comparison: Predator vs. Prey
  250. Genetic Disease involving the Human alpha-glucosidase Gene
  251. Ethics Case Studies
  252. Estimating a State's Vulnerability to Disaster
  253. Pine Needles
  254. Health vs. Wealth: A Gapminder Exploration Out of Mountains of Data, What Are the Questions?
  255. Welcome to the Galapagos!
  256. Hormones, Drugs, and Pregnancy
  257. Kenya: Water
  258. Displaying Spatial Data Using Excel and Google Earth
  259. How I learned to do online research while shopping for shoes.
  260. Workshop Feedback Form - Please follow this link to complete the workshop feedback form.

Copyright ©2008 BioQUEST Curriculum Consortium, All Rights Reserved. This material is based upon work supported by the National Science Foundation under Grant No. 0127498. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation.