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collected learning materials

Module by: Farooq Mohammad

PHYSICAL CHEMISTRY

  1. Dictionary of Units and Measures

This provides a summary of most of the units of measurement to be found in use around the world today. http://www.ex.ac.uk/cimt/dictunit/dictunit.htm

  1. The Effect of Concentration on Reaction Rate

This java applet (and accompanying material) is designed to simulate an experiment to find the effect of varying the concentration of iodide ions on the rate of reaction between hydrogen peroxide and an acidified solution of potassium iodide. In the experiment, the learner takes readings and plots graphs within the Java applet. The simulation is designed to complement practical laboratory experiments and to provide an opportunity to repeat experiments for revision purposes.

http://jelsim.org/pub/Scholar/ppa1/

  1. CHEMINFO - Chemical Information Services

A large list of chemistry-related links, mostly dealing with viewing software.

http://www.indiana.edu/~cheminfo/

  1. Electrochemical Engineering Notes

Notes for a class on electrochemical engineering, including fundamental information about electrochemical cells and their related thermodynamics, kinetics, and mass transfer; plus applications such as lithium ion batteries, electrode fabrication, fuel cells, and the hydrogen economy.

http://webche.ent.ohiou.edu/che490-690/Handouts%20and%20Class%20notes.htm

  1. All about electrochemistry

An in-depth treatment intended to serve as a supplment or replacement for standard General Chemistry textbook chapters on this subject. Chemistry and electricity, electrochemical cells, standard cell potentials, the Nernst equation, batteries and fuel cells, electrolytic cells.

http://www.chem1.com/acad/webtext/elchem/

  1. Drop Calorimeter (Heat Capacity)

Simulation of a drop calorimeter for determining heat capacity (Cp) or enthalpy increment (heat content). Menu of seven metal samples in two sizes (three metals sealed in glass ampoules for heat of fusion studies) are heated in an oven which is settable in 10 0C increments between 100 and 1000 0 C. The calorimeter is a metal block operating near room temperature. The page contains operating instructions, background discussion, and suggested experiments at beginning and advanced levels.An "unknown" sample is included. http://web.umr.edu/~gbert/dropcal/Adrop.html

  1. Thermodynamics of Batteries

Simulates battery discharging across variable resistance. Monitors current, voltage, heat, and work.

http://web.umr.edu/~gbert/BATTERY/Anibat.HTML

8. Kemsite

A Collection of instructional modules for College Chemistry and Physical chemistry. It includes interactive and animated features. Soime modules are in Java, some use spreadsheets; most are in HTM text. http://www.nyu.edu/classes/sundheim/

9. Chemguide

This site has tutorials covering structure and bonding, inorganic chemistry, organic chemistry, and physical chemistry, as well as instrumental analysis. http://www.chemguide.co.uk/

  1. Conductivity of Ionic Solutions

This is a simulation of a hand-held conductivity meter. A menu allows selection of a cation/anion pair, a concentration, and temperature (15-45 0C) for measurement of conductivity. An advanced experiment investigates determinations of solubility by conductivity measurements, and the determination of ionization constants of ammonia and acetic acid. Printable data sheets are provided. http://web.umr.edu/~gbert/conductivity/cond.html

  1. Polymerization Simulation

http://www.pirika.com/chem/PolymerE/naoko2.htm

  1. Chemogenesis web book

The Chemogenesis web book explores how chemical structure and reactivity emerge from the periodic table of the elements, and how they bifurcate into the rich, complex and extraordinary science that we know and experience. http://www.meta-synthesis.com/webbook.html

INORGANIC CHEMISTRY

1. Transition Metal Chemistry

Second year Inorganic Course on Transition metal Chemistry

http://wwwchem.uwimona.edu.jm/courses/C21Jout.html

2. Interactive Inorganic Chemistry Tutorials

Basic, introductory chemistry concepts in an easy to follow format.

http://chemistry.boisestate.edu/rbanks/inorganic/introchem.html

3. PSIGate - Physical Sciences Information Gateway/Chemistry

This web site has materals covering many different physical sciences but highlighted here is chemistry. Within the chemistry portion of the site, it is possible to search for specific keywords, or browse through many different subjects such as analytical chemistry, inorganic chemistry, organic chemistry, general chemistry, and more. Once you perform your search, the database will then provide you with different web sites that match your search criteria with a brief description of each.

http://www.intute.ac.uk/sciences/chemistry/

4. Descriptive Chemistry Project

This web site is dedicated to the research of iron. The web site covers the following topics: properties of iron, extraction of iron, purification of iron, production of iron, and uses of iron.

http://www.sof.edu/gallery/Christie/Descriptive--Iron/homepage.htm

5. Structures of Metals: Closest Packing

This web site has a short tutorial on the different types of closest packing of atoms in metals.

http://www.seas.upenn.edu/~chem101/sschem/metallicsolids.html

6. Inorganic and Materials Chemistry Experiments

Several experiments for inogranic and materials chemistry developed for a course at Binghamton. Lots of text. http://materials.binghamton.edu/labs/chemexp.html

7. Transition Metal Chemistry and Coordination Compounds

This web site is a pdf lecture on tranistion metal chemistry and coordination compounds. The lecture covers the transition metals, coordination complexes, ligands, isomerism, crystal field theory, and applications or coordination complexes.

http://www.merlot.org/cgi-bin/ntlinktrack.cgi?http://genchem.uky.edu/woodrum/chang22.pdf

  1. VSEPR Method and Database

The site describes the VSEPR geometries of ions and molecules and provides multiple examples of each using CHIME. A Database of molecules is also linked to the page.

http://www.faidherbe.org/site/cours/dupuis/vseprev.htm

  1. Coordination Compounds

This site is a 26-page pdf file covering coordination chemistry topics, including some key definitions, different types of isomerism, and naming. http://wwwscience.murdoch.edu.au/teaching/pec247/CCLectures456.pdf

10. Chemistry of Coordination Compounds

This web site consists of a slide-show covering the chemistry of coordination compounds. The slide-show consists of 96 slides total, many with pictures or other figures as well as loads of information.

http://www.public.asu.edu/~jpbirk/index.html

11. The Transition Elements and Their Coordination Compounds

This web site covers the topic of coordination compounds, including general trends, complex ions, isomerism, valence bond theory, and crystal field theory. It would be a very useful resource for a student learning coordination chemistry, or just looking for some additional review materials, however, several topics could be covered with some additional detail.

http://fp.academic.venturacollege.edu/doliver/chem1b/notes/Chapr23new.htm

12. Glossary of terms used in BioInorganic Chemistry

This is a glossary of terms used in Bioinorganic Chemistry set up by the International Union of Pure and Applied Chemistry. The site is designed to standardize terminology and abbreviations. It is not, however, a comprehensive dictionary. http://www.chem.qmul.ac.uk/iupac/bioinorg/

  1. Biological Inorganic Chemsitry

The site has detailed information on the following topics:-Coordination Chemistry of Biomolecules, -Photosynthesis and Electron Transfer Relays-Transport of Metal Ions and Their Complezes, -Metal Ion Catalysis in Biology-Metalloenzyme FunctionThe site is organized, detailed, and contains good diagrams. Students will find this site a good review of the topics listed above. http://www.chem.biomedchem.uwa.edu.au/chemistry_home

  1. The Chemical Thesaurus

"The Chemical Thesaurus is a reaction chemistry information system that extends traditional references by providing hyperlinks between related information. The program goes a long way toward meeting its ambitious goal of creating a nonlinear reference for reaction information. With its built-in connections, organizing themes, and multiple ways to sort and view data, The Chemical Thesaurus is much greater than the sum of the data in its database. "The program does an excellent job of removing the artificial barriers between different subdisciplinary areas of chemistry by presenting a unified vision of inorganic and organic reaction chemistry." http://www.chemthes.com/

  1. Live Chem

An online video library of transition metal salt reactions. User controls which reactants to react. Nearly 300 videos for students to watch and learn from. Fully interactive Flash environment. Part of the Virtual Chemistry group at Oxford University.

http://neon.chem.ox.ac.uk/vrchemistry/LiveChem/transitionmetals_content.html

  1. 3DMolSym

Interactive molecular visualization of symmetry elements and symmetry operations.3DMolSym is a molecular visualization educational program designed to visualize the symmetry elements of molecules and to animate the corresponding symmetry operations in an interactive 3D environment. It is aimed to help chemistry students conceive the symmetry properties of the molecular structure. 3DMolSym includes a searchable database with symmetry and geometry data of 48 organic and inorganic molecules, corresponding to all point groups of chemical interest.

http://www.molwave.com/software/3dmolsym/3dmolsym.htm

  1. Bottomless Worksheet of Mole Conversions

Get endless practice on using molar masses to convert between moles and grams with this Bottomless Worksheet. Ten more problems are always just a click away -- you can get a printed copy and answer sheet, too. Both organic and inorganic molecules are presented, including molecular names and formulae. http://www.college-cram.com/library/mysearch.htm?string=mole+conversion

  1. Bottomless Worksheet of Molarity

Get endless practices calculating molarity in a solution with this Bottomless worksheet. At the click of a button, it creates ten more problems for you to solve (including finding moles/liter, moles, and liters of solution as separate problems). A printed copy and answer sheet is also available.

http://www.college-cram.com/library/mysearch.htm?string=molarity

  1. Bottomless Worksheet of Molar Masses

This Bottomless Worksheet is a way to practice calculating molar masses for organic and inorganic molecules. At the click of a button, it creates ten more problems for you to solve (complete with molecular name and formula). A printed copy and answer sheet is also available.

http://www.college-cram.com/library/mysearch.htm?string=molar+masses

  1. Calculating Molar Mass

Building your molecule from up to four elements from the Periodic Table, this Formula Solver shows you how to calculate molar mass using Avogadro's number.

http://www.college-cram.com/library/mysearch.htm?string=molar+mass

  1. Solid State Chemistry

This web site has tutorials covering crystalline solids, metallic solids, conduction properties, ionic solids, and covalent solids. The site is a supplemental information site for a general chemistry for engineers course at the University of Pennsylvania.

http://www.seas.upenn.edu/~chem101/sschem/solidstatechem.html

  1. Synthetic Pages

Twenty pages of organic chemistry reactions with links explaining each. You can browse through the pages or use the search bar. http://www.syntheticpages.org/

  1. Chemguide

This site has tutorials covering structure and bonding, inorganic chemistry, organic chemistry, and physical chemistry, as well as instrumental analysis. http://www.chemguide.co.uk/

  1. Chemistry Spreadsheet Calculator

This Java Applet contains a tutorial to teach students how to balance chemistry equations along with a balance simulator. It will also automatically balance virtually any type of equation and follow up with many stoichiometry, and equilibrium problems it can solve. This includes titration, gravimetric analysis, limiting reagents, ideal gases, partial pressures, temperature and pressure conversions in three scales each, empirical formulas, percentage weight compositions, and molecular weights where it knows the weight of every element. It includes a tutorial to get you started and has instructions that teach by example. http://mathshowcase.com/chemsprd/

  1. Ligand Field Theory

http://wwwchem.uwimona.edu.jm/courses/CFTpt2.html

  1. Lanthanides and Actinides

Four lectures in the 2nd year inorganic chemistry course.

http://www.chem.ox.ac.uk/icl/heyes/LanthAct/lanthact.html

  1. Chemguide: Helping you to Understand Chemistry

This site has information on atomic structure and bonding, inorganic chemistry, physical chemistry, instrument analysis, basic organic chemistry, and organic reaction mechanisms. There is also a link to Dr. Phil Brown’s website where you can get questions for tests. The sites information is based on the syllabus for UK students. The site does not have many diagrams or any interactive material. However, the information is detailed and clear. Students in high school and undergraduate general chemistry classes will find it very helpful. http://www.chemguide.co.uk/index.html

  1. Qualitative Analysis of Cations Applet

The Applet, Qualitative Analysis of Cations, enable user to test virtual unknown samples of cation mixtures. User practices with known samples and unknowns before trying a "true unknown”.

http://www.dartmouth.edu/~chemlab/info/resources/qual/soluble.SolubleAppletC.html

  1. Lenntech Periodic Table

This web site is a periodic table of elements that includes information about each of the elements properties, health effects, and environmental effects. This periodic table is colorful and easy to use.

http://www.lenntech.com/periodic-chart.htm

30. Environmental geobiochemistry

A 12-part introductory survey of the chemistry of the earth, atmosphere, hydrosphere and biosphere. This constituted the first two weeks of the author's 3rd-year environmental chemistry course.

http://www.chem1.com/acad/webtext/geochem/

  1. Reduce, Reuse and Recycle

Through the help of materials, resources, and a demonstration this lesson introduces the three "R's" reduce, reuse, and recylce.

http://lightbridge.sonoma.edu/lightbridge/lessons/publish/94/main/introduction.html

  1. Thermal Inversions and Photochemical Smog

CA Earth Science Standard # 6b- Great explaination of thermal inversion. Good illustration of normal compared to inversion. Explains chemicals involved and gives thermal inversion links along with photochemical smog links. Gerneral information on air pollution, water pollution waste, solid waste and toxic and hazardous waste in the state of California. You can type in the name of other places outside of California. There are also links to Earth quakes and other naturally occuring events (volcanoes, floods).

http://daphne.palomar.edu/calenvironment/smog.htm

  1. Chemical Reactivity Worksheet

The Chemical Reactivity Worksheet is a free program you can use to find out about the reactivity of substances or mixtures of substances (reactivity is the tendency of substances to undergo chemical change).http://response.restoration.noaa.gov/type_subtopic_entry.php?RECORD_KEY%28entry_subtopic_type%29=entry_id,subtopic_id,type_id&entry_id(entry_subtopic_type)=328&subtopic_id(entry_subtopic_type)=3&type_id(entry_subtopic_type)=3

  1. Biological Electron Transfer

Provides information and pictures on electron transfer reactions and their application in various areas of biology including respiration and photosynthesis. Also provides details of the thermodynamics and kinetics of electron transfer, including diagrams and equations, and electron carriers in biochemistry.

http://www.merlot.org/cgi-bin/ntlinktrack.cgi?http://iriaxp.iri.tudelft.nl/~scwww/candeias/bio-et/

  1. Climate Change Global Warming

The Global Greenhouse Warming web site contains sections on greenhouse gases, current and potential impacts, extreme weather events, alternative and renewable energy, nuclear energy, polar caps, climate and society, sea level rise, ocean acidification and actions that can be undertaken to reduce global warming. http://www.global-greenhouse-warming.com/

  1. Recycle City

Welcome to Recycle City! there's lots to do here - people and places to visit and plenty of ways to explore how the city's residents recycle, reduce, and reuse waste. When you leave this place, you'll know much more about what you can do to help protect the environment.

http://www.epa.gov/recyclecity/

  1. Dr. E's Energy Lab

Middle school students learn about different sources of energy, alternative fuels, and energy conservation by exploring Dr. E’s Energy Lab.  Published by the US Department of Energy. 

http://www1.eere.energy.gov/kids/

  1. The Scientific Method

The Scientific Method page gives a comprehensive description of how the method works and gives several examples. It covers observation, formulation of a question, hypothesis, experiment with control group, analysis of data, and decisions based on the conclusions.

http://plantphys.info/plants_human/scimeth.html

  1. Spectrophotometry - The Mystery of Molecular Fingerprints

This 10 minute multimedia learning object uses video/audio, powerpoint, a presentation outline and fully searchable scrolling text to teach the basics of spectrophotometry.

http://people.hofstra.edu/ronald_a_chalmers/spectro/spectro.html

  1. The Energy Advocate

How we get energy. How we use energy. Comparison of energy from different forms such as hydroelectric, coal, gas, et cetera.

http://www.energyadvocate.com/index.htm

  1. Using PowerPoint to Create Poster Presentations

This site contains tutorials on how to develop posters for research (and other) presentations using PowerPoint. Links to sites on PowerPoint poster content, development, and presentation are also included. http://west.osu.edu/Poster/Index.html

  1. Biomedical and Clinical Journals On-line

An updated list of biological, medical, and chemical journals available online.

http://med.stanford.edu/medworld/research_journals.html

  1. Environmental Science Laboratory Exercises

This site contains the online laboratory materials for Kennesaw State University's General Education course in Interdisciplinary Science. Developed with NSF funding (DUE-0088723), the laboratory program utilizes hands-on and online exercises to have students quantify and analyze their personal contributions to regional and global environmental impacts, and understand fundamental concepts in Environmental Science. The exercises are organized into multi-week modules on a common topic, allowing students to examine issues in substantial detail. http://esa21.kennesaw.edu/

  1. Qualitative Analysis - Group I Cations

A simulated experiment on qualitative analysis of the Group I cations. User may select solutions containing known cations, unknown cations as a trial experiment, or unknown cations as an assigned experiment. Results are graded in the trial mode. In the assigned mode, the results may be printed out to be handed in. http://web.umr.edu/~gbert/qual/qual.html

  1. Qualitative Analysis of Cations Applet

http://www.dartmouth.edu/~chemlab/info/resources/qual/soluble.SolubleAppletC.html

NANO TECHNOLOGY

  1. QC Tool Information

https://www.nanohub.org/simulation_tools/qclab_tool_information

  1. Bio-nanotechnology: Implications for more Effective Tissue Engineering Materials https://www.nanohub.org/index.php?option=com_resources&id=142
  2. Measuring Molecular Conductance: A Review of Experimental Approaches

https://www.nanohub.org/index.php?option=com_resources&id=143

  1. Simulating Electronic Conduction Through the nano HUB

https://www.nanohub.org/index.php?option=com_resources&id=423

  1. Electrical Resistance: An Atomistic View

https://www.nanohub.org/index.php?option=com_resources&id=144

  1. Chemistry of Molecular Monolayers

https://www.nanohub.org/index.php?option=com_resources&id=145

  1. Electronic Transport Through Self-Assembled Monolayers

https://www.nanohub.org/index.php?option=com_resources&id=156

8. Multiscale Modeling of the Mechanical Behavior of Polymer-Based Nanocompisites https://www.nanohub.org/index.php?option=com_resources&id=158

  1. Contacting Molecules - Chemistry in Molecular Electronics

https://www.nanohub.org/index.php?option=com_resources&id=160

  1. Nanofluidics

https://www.nanohub.org/index.php?option=com_resources&id=410

  1. Probing Molecular Conduction with Scanning Probe Microcopy

https://www.nanohub.org/index.php?option=com_resources&id=497

  1. Synthesis & Performance of Biofunctional Organic Interfaces for Sensing, Protein Crystallization and Drug Delivery

https://www.nanohub.org/index.php?option=com_resources&id=867

  1. Nanotechnology in Drug Delivery

https://www.nanohub.org/index.php?option=com_resources&id=875

  1. Nanotechnology for the Creation of Better Tissue Engineering Materials

https://www.nanohub.org/index.php?option=com_resources&id=880

  1. DNA Self Assembly

https://www.nanohub.org/index.php?option=com_resources&id=859

16. Electronic Transport in Semi-conducting Carbon Nanotube Transistor Devices https://www.nanohub.org/index.php?option=com_resources&id=147

17. Self-Heating and Sacling of Silicon Nano-Transistors

https://www.nanohub.org/index.php?option=com_resources&id=168

18. Computational Tools for Biological Applications

https://www.nanohub.org/index.php?option=com_resources&id=175

  1. Information Theory and Cell/Nanoparticle Modeling

https://www.nanohub.org/index.php?option=com_resources&id=182

  1. Computer-Aided Analysis and Design of Bio-molecules

https://www.nanohub.org/index.php?option=com_resources&id=183

  1. Nanotechnology-Enabled Direct Energy Conversion

https://www.nanohub.org/index.php?option=com_resources&id=184

  1. Organic Electronics Part I: Chemical Modulation

https://www.nanohub.org/index.php?option=com_resources&id=530

  1. Tuning of Electronic Properties of Organic Semiconductors....

https://www.nanohub.org/index.php?option=com_resources&id=529

24. Top-Metal/Molecular Monolayer Interactions and Final Device Performance

https://www.nanohub.org/index.php?option=com_resources&id=467

  1. Towards Molecular Electronic Circuitry: Selective Deposition of Metals on Patterned...

https://www.nanohub.org/index.php?option=com_resources&id=466

  1. Organic Electronics Part II: Electric Field Modulation

https://www.nanohub.org/index.php?option=com_resources&id=468

  1. Synthetic and Processing Strategies to New Molecular and Polymeric...

https://www.nanohub.org/index.php?option=com_resources&task=view&id=469

  1. DNA Charge Motion: Regimes and Behaviors

https://www.nanohub.org/index.php?option=com_resources&id=528

  1. Therapeutic Agent Delivery

https://www.nanohub.org/index.php?option=com_resources&id=770

  1. Ovarian Cancer: Progress and Challenge

https://www.nanohub.org/index.php?option=com_resources&id=771

  1. Laser Cooling of Solids

https://www.nanohub.org/index.php?option=com_resources&id=195

  1. Designing Nanocomposite Materials for Solid-State Energy Conversion

https://www.nanohub.org/index.php?option=com_resources&id=832

  1. Basic Electronic Properties of DNA

https://www.nanohub.org/index.php?option=com_resources&id=526

  1. Novel Magnetic Materials for Biomolecular Diagnostics

https://www.nanohub.org/index.php?option=com_resources&id=523

  1. Testicular Cancer

https://www.nanohub.org/index.php?option=com_resources&id=767

  1. Multianalyte Approaches to Cancer Diagnosis

https://www.nanohub.org/index.php?option=com_resources&id=768

  1. Scanning Probe Microscopes

https://www.nanohub.org/index.php?option=com_resources&id=92

  1. Nano/Bio Connection

Nanotechnology is not just a topic for physicists, chemists, and engineers. Laura explains the important role of biologists in this field, and shows how they may help provide clues to molecular assembly techniques. https://www.nanohub.org/index.php?option=com_resources&id=91

  1. Scanning Probe Microscope Operation

Scanning Probe Microscopes (SPM's) include Atomic Force Microscopes (AFM's) and Scanning Tunneling Microscopes (STM's or STEM's). They are the only instruments in widespread use that can actually "see" single atoms! You can skim this resource quickly to learn the general concepts of SPM's, or you can read carefully and almost be ready to operate one!

https://www.nanohub.org/index.php?option=com_resources&id=442

  1. Scanning Probe Microscope Piezoelectric Crystals

In this resource we disassemble the piezoelectric assembly of a scanning probe microscope. At its core is a white cylinder of the piezoelectric material. If you look closely, it has a granular texture that reflects the fact that it is actually made up of many small crystals.

https://www.nanohub.org/index.php?option=com_resources&id=444

  1. Scanning Electron Microscope

This resource describes a scanning electron microscope (SEM). It includes detailed depictions of how the electron beam is focused and used to create hugely magnified images of experimental specimens.

https://www.nanohub.org/index.php?option=com_resources&id=446

  1. Nanosystems Biology

As we enter the 21st century, we stand at a major inflection point for biology and medicine-the way we view and practice these disciplines is changing profoundly. These changes are being driven by systems biology, a new approach to biology, and which will increasingly transform medicine from disease-driven and reactive to health-driven and predictive and preventative. Systems biology and predictive and preventative medicine are both are data driven and, accordingly, both require new tools for making large numbers of measurements. Microfluidics, nanotechnologies and molecular imaging will revolutionize our ability to generate comprehensive data sets that span from individual cells to patients. In this talk I will describe a systems biology approach toward disease, using cancer as the model. I will then describe our progress toward developing `informative' diagnostic tools based upon the multiparameter analysis of blood cells and serum, with the goals of achieving early stage detection of various cancers. https://www.nanohub.org/index.php?option=com_resources&id=170

  1. Transistors

This talk is an elementary introduction to the transistor. It is designed to be accessible to the nonspecialist with a basic understanding of physics. My purpose is to explain how this important device functions and to discuss the challenges that engineers face as they continue to scale down transistor sizes. https://www.nanohub.org/index.php?option=com_resources&id=167

  1. Nanoparticle Synthesis and Assembly for Biological Sensing

https://www.nanohub.org/index.php?option=com_resources&id=386

  1. Nanodevices: A Bottom-up View

https://www.nanohub.org/index.php?option=com_resources&id=385

  1. First Principles-Based Atomistic and Mesoscale Modeling of Materials

https://www.nanohub.org/index.php?option=com_resources&id=434

  1. Designing Nanocomposite Thermelectric Materials

https://www.nanohub.org/index.php?option=com_resources&id=383

  1. The Bardeen Transfer Hamiltonian Approach to Tunneling and its Application to STM/Carbon Nanotubes

https://www.nanohub.org/index.php?option=com_resources&id=382

  1. Bandstructures in Nanoelectronics

https://www.nanohub.org/index.php?option=com_resources&id=381

  1. Atomic Force Microscopy

https://www.nanohub.org/index.php?option=com_resources&id=520

  1. PN Junction Theory and Modeling

https://www.nanohub.org/learningmodule/?task=view&id=68

  1. Introduction to BioMEMS and Bionanotechnology: Sensing Methodologies (cont), Integrated BioMEMS and Nanodevices (Lecture 4)

https://www.nanohub.org/index.php?option=com_content&task=view&id=438

  1. Introduction to BioMEMS and Bionanotechnology: Microfluidic Transport (cont.), Sensing Methodologies (Lecture 3)

https://www.nanohub.org/index.php?option=com_content&task=view&id=437

  1. Introduction to BioMEMS and Bionanotechnology: Introduction, Device Fabrication Methods, DNA and Proteins (Lecture 1)

https://www.nanohub.org/index.php?option=com_content&task=view&id=435

  1. Nanomanufacturing: Top-Down and Bottom-Up

https://www.nanohub.org/index.php?option=com_resources&id=96

Organic Chemistry, Biology

  1. Organic Chemistry Learning Materials

http://web.chem.ucla.edu/~harding/index.html

  1. The Chemical Thesaurus

http://www.chemthes.com/

  1. Modified Nucleic Acids

https://www.nanohub.org/index.php?option=com_resources&id=860

  1. Dictionary on Organic Chemistry

http://www.woc.science.ru.nl/

  1. Biochemistry Video Lecture Series

http://wolfweb.unr.edu/homepage/chuckd/

  1. Computer Aided Synthesis Design

http://esblurock.info/index.php?option=com_content&task=view&id=15&Itemid=30

  1. Bottomless Worksheet of Mole Conversions

http://www.college-cram.com/library/mysearch.htm?string=mole+conversion

  1. Bottomless Worksheet of Molarity

http://www.college-cram.com/library/mysearch.htm?string=molarity

  1. Bottomless Worksheet of Molar Masses

http://www.college-cram.com/library/mysearch.htm?string=molar+masses

  1. Calculating Molar Mass

http://www.college-cram.com/library/mysearch.htm?string=molar+mass

  1. Organic Chemistry Tutorial Webs

http://www.gwu.edu/~mpb/organic.htm

  1. Named Reactions in Organic Chemistry

http://orgchem.chem.uconn.edu/namereact/named.html

  1. Chemistry 220 - Survey of Bio-organic Chemistry

http://www.otterbein.edu/home/fac/dnhjhns/chem220/index.html

  1. Organic Reaction Mechanisms

http://treefrog.fullerton.edu/chem/orm.html

  1. Reflux

http://www.chem.ualberta.ca/~orglabs/reflux.htm

  1. Distillation

http://www.chem.ualberta.ca/~orglabs/distillation.htm

  1. Synthetic Pages

http://www.syntheticpages.org/

  1. Organic Chemistry Online

http://www.chem.uic.edu/web1/OCOL-II/WIN/HOME.HTM

  1. General, Organic and Biochemistry

http://ull.chemistry.uakron.edu/genobc/

  1. Named Organic Reactions: An Interactive Guide

This website gives users the chance to learn more about the mechanisms of the many named organic reactions which exist in the realm of Chemistry. The users need to do each step by themselves through interactive curly arrow pushing, with the help of some hints, in a totally different learning process compared to an ordinary textbook. http://neon.chem.ox.ac.uk/vrchemistry/NOR/default.htm

  1. Colby College Organic Chemistry Simulations

A list of Shockwave simulations of basic properties and materials of organic chemistry.

http://www.colby.edu/chemistry/OChem/demoindex.html

  1. Thin Layer Chromatography

A tutorial presenting the technique of tlc as used in an introductory, university-level, organic chemistry lab. Part of the University of Alberta’s Organic Chemistry Lab Handbook.

http://www.chem.ualberta.ca/~orglabs/chrom.htm

  1. Glossary of Biochemistry and Molecular Biology Online

Nearly 3,000 Biochemistry and Molecular Biology terms are concisely defined in this online version of David Glick's glossary of both common words and lab jargon. Users can search aphabetically or by keyword. Definitions are often one sentence and assume user basic knowledge of the biosciences. A bibliography of additional references is included.

http://www.portlandpress.com/pp/books/online/glick/default.htm

  1. Separation of acids, bases, and neutral compounds

A lab tutorial dealing with the separation of mixtures containing organic acids, bases and neutral compounds. http://www.chem.ualberta.ca/~orglabs/separation/mastercopy/masterframe.html

  1. The Biology Project: Biochemistry

Tutorials and interactive quizzes covering basic chemistry, metabolism, enzymes, energy, & catalysis, large molecules, photosynthesis, molecular structure, pH & pKa, clinical correlates of pH .

http://www.biology.arizona.edu/biochemistry/biochemistry.html

  1. Bonding and Bond Formation

An introduction, using quantum based visualizations and animations, of bond formation in ionic and covalent compounds. http://www.humboldt.edu/~rap1/Chem_resrc/BndSup.htm

  1. The Molecules of Life

This is an educational site about protein structure. While there is some brief explanations of DNA and protein, the most interesting sections of the site are on protein structure prediction and "Martin’s distinctly succinct guide to X-ray crystallography". The guide includes pictures of equipment and procedures along with the occasional short movie. There are also links to some of the structures produced by the Laboratory of Molecular Biophysics at the University of Oxford.

http://biop.ox.ac.uk/www/mol_of_life/Molecules_of_Life.html

  1. Metabolic Pathways of Biochemistry

A collection of 2-D and 3-D diagrams of various metabolic pathways, including glycolysis and Kreb's other carbohydtate pathways and lipid and amino acid pathways. the 3-D images require the Chime plugin and show 3-D modles of the intermediates. http://www.gwu.edu/~mpb/

  1. Insulin: structure of a protein hormone

This Chime tutorial provides a detailed exploration of the structure of the molecule, insulin and the specific examination of alpha helices and disulfide bonds. The authors provide a worksheet of questions that visitors can use to fully explore the molecule.

http://c4.cabrillo.edu/projects/insulin_tutorial/index.html

  1. Spectroscopic Simulator

We chose to develop this applet first since it covers an aspect of the course that is based on relatively simple mathematics, but which students seem to find very confusing. At this point in the course, students have learned the basic aspects of quantum mechanics, namely, that the energy associated with the motions of molecules can not be assigned arbitrarily but must take on specific values.

http://www.chemcollective.org/applets/spectro.php

  1. Animations of Organic Reactions

http://www.usd.edu/~gsereda/computer.html

  1. Cell Biology/Chemiosmosis/Topic 1 of 3: Components of Chemiosmosis

Students look at the components of chemiosmosis in the bacteriumParacoccus denitrificans in which they step through animations of electron transport, proton gradient, and ATP synthase, learning the components involved in each.

http://ats.doit.wisc.edu/biology/cb/ch/t1.htm

  1. Cell Biology/Chemiosmosis/Topic 2 of 3: Chemiosmosis in Eukaryotic Cells

Students construct chemiosmosis pathways in mitochondria and chloroplasts. Students will: 1) select the correct components (electron donor and acceptor, ETC, ATP synthase) and place them in the appropriate subcellular location; 2) apply concepts about redox reactions, concentration gradients, and energetics to explain how chemiosmosis fits in a cell’s overall metabolism; and 3) summarize properties of chemiosmosis in organelles and Parcoccus denitificans.

http://ats.doit.wisc.edu/biology/cb/ch/t2.htm

  1. Cell Biology/Chemiosmosis/Topic 3 of 3: Evolution of Chemiosmosis

Students follow the evolution of chemiosmosis and the role it played in the evolution of cellular life. Students will: 1) learn about chemical and cellular changes on early earth; 2) analyze efficiency of early forms of chemiosmosis; 3) compare mechanisms of non- and oxygenic photosynthesis, and 4) evaluate metabolic advantages of several endosymbiotic relationships.

http://ats.doit.wisc.edu/biology/cb/ch/t3.htm

  1. Cell Biology/Chemiosmosis

http://ats.doit.wisc.edu/biology/cb/ch/ch.htm

  1. Cell Biology/Thermodynamics/Topic 2 of 5: Energy conversions

Students follow energy conversions in Euglena, during photosynthesis, respiration, and cellular work. Students will: 1) review definitions and properties of endergonic and exergonic processes; 2) explain, in qualitative terms, free energy changes in the universe, photosynthesis, respiration and cell work; and 3) identify the type of work (chemical, mechanical, etc.) being done in a number of cellular processes.

http://ats.doit.wisc.edu/biology/cb/td/t2.htm

  1. Cell Biology/Thermodynamics/Topic 3 of 5: ATP

Students solve a mystery: where does ATP’s energy go in the glutamine synthetase reaction? Students will: 1) “interview” molecules to learn how ATP’s energy was released and absorbed in the ATP-coupled reaction; 2) reconstruct events leading to and from a high energy reaction intermediate; and 3) identify which molecules (reactants, products, enzyme) got some of ATP’s energy.

http://ats.doit.wisc.edu/biology/cb/td/t3.htm

  1. Cell Biology/Thermodynamics/Topic 4 of 5: Enzymes

Students learn what enzymes can and cannot do in a reaction by “hiring” an enzyme for the “job” of catalyst from a set of candidates that may be exaggerating their “qualifications.” Students will: 1) evaluate the claims of each enzyme to determine if they violate the chemical and thermodynamic properties of enzymes; and 2) select the “candidate” who is honest about what a catalyst can do in a reaction. http://ats.doit.wisc.edu/biology/cb/td/t4.htm

  1. Cell Biology/Thermodynamics/Topic 1 of 4: Why Cells Need Energy

Students make decisions for a paramecium living in a Petri dish that will determine if it will have enough energy to survive and reproduce. Students will: 1) decide whether the paramecium will eat, swim, or reproduce based on its available energy and the amount of energy required for each activity; 2) learn about cellular processes that require energy. http://ats.doit.wisc.edu/biology/cb/td/t1.htm

  1. Contemporary Chemistry Multimedia Module

The Contemporary Chemistry Multimedia Module is a comprehensive, well-organized set of unique, highly interactive animations with just-in-time essay and multiple-choice questions that allow the student to extract maximum knowledge from these animations. All questions are provided with comprehensive answers, even for wrong multiple choice answers. In addition, there are links on each Web page to: in-depth text material that provides a theoretical basis for each animation, chapter summaries and chemical principles introduced, a glossary, and links to relevant web sites covering the environmental subjects of the Multimedia Module (global warming, ozone layer depletion, air and water pollution, solid waste, energy sources, alternative energy, energy conservation, and consequences of the Big Bang). This module is an excellent resource for college and high school chemistry students as well as independent adult learners. The question format is well suited for small group discussion. Site navigation is convenient for quick review and return visits, which will be needed because of the wealth of information and learning potential in this project.

http://contemporarychemistry.com/MultimediaProject/index.html

  1. Introduction to acid-base chemistry

Covers the fundamental concepts of acids and bases. Except for some stoichiometry and a discussion on pH, this section is largely qualitative. http://www.chem1.com/acad/pdf/c1xacid1.pdf

  1. Cell Biology Animation

This Website covers cell biology all in animation. Cell structure with descriptions of each part, DNA structure, an animated overview of water chemistry, the light and dark reactions of photosynthesis are all presented in this Website. You are also able to see cells broken apart and explained, molecules in structural form, and the pH scale describing acidic and basic. http://www.johnkyrk.com/

  1. DNA from the Beginning

DNA from the Beginning is an animated tutorial on DNA, genes and heredity. The science behind each concept is explained using animations, an image gallery, video interviews, problems, biographies, and links. There are three sections, Classical Genetics, Molecules of Genetics and Organization of Genetic Material. Key features are the clear explanations of classical experiments and the excellent photographs of researchers and their labs. http://www.dnaftb.org/dnaftb/

  1. Construction of the Cell Membrane

"The student will study the structure of the cell membrane by constructing it using the correct molecules." Learning object relevant to health sciences students studying nutrition, biochemistry and pharmacology. http://www.wisc-online.com/objects/index_tj.asp?objID=AP1101

  1. Biomedia Cell Biology Image and Movie Database

The Biomedia database is designed to provide Biology students with a large number of high quality light microscope, TEM (Transmission Electron Microscope) and SEM (Scanning Electron Microscope) images. The purpose of this site is to aid in studies of cellular structures such as the nucleus and mitochondria. Images are tagged with detailed information concerning organelle types, microscope techniques and taxonomy. We are presently using the site in our introductory cell biology course. Simply click the "Search for media" link to obtain a detailed list of images. If you would like to contribute to this image database, please sign up to become a Biomedia user (Login -> Become a Bio-Media user)

https://www.biomedia.cellbiology.ubc.ca/

  1. Cell Biology Topics

Cell Biology Topics is a collection of images and text selected from a variety of sources to provide information on a variety of cell topics--mitochondria, membranes, microtubules, clia, flagellae, protein synthesis and sorting of molecules produced within the cell, and the nucleus. There are also several lecture slide presentations on selected topics. http://cellbio.utmb.edu/cellbio/

  1. Cell Membranes Problem Set

This exercise introduces the dynamic complexes of proteins, carbohydrates, and lipids that comprise cell membranes. You should learn that membranes are fluid, with components that move, change, and perform vital physiological roles as they allow cells to communicate with each other and their environment. We also show that membranes also are important for regulating ion and molecular traffic flow between cells,and that defects in membrane components lead to many significant diseases.

http://www.biology.arizona.edu/cell_BIO/problem_sets/membranes/index.html

  1. Ways of knowing biology

Ways of Knowing Biology is a course intended for first-year college students at UW-Madison. This is a broad-based survey course in Biology. Students learn about current research in Biology through seminars by diverse faculty members, in small groups through research explorations in faculty members' labs, and one-on-one through graduate student shadowing. Some of these are "hands-on" experiences. Additionally students discuss "hot topics" in Biology with their peers through faculty-guided Discussions - topics have included evolution, human embryonic stem cells, and genetically modifid foods. The title of the course was inspired by a series of essays written by biologist John Moore and other members of the American Society of Zoologists in the 1980s entitled, "Science as a Way of Knowing," modified to Ways of Knowing Biology to reflect not only a focus on biology but also on the goal of introducing the many sub-disciplines of biological research. The focus is on research because it is the fundamental mechanism by which we have learned what we know and it is how we continue to acquire new understanding of the living world. The course shows not only the diversity of research areas in biology but also the overlap between seemingly separate fields in the types of questions they ask and the research approaches they take. http://www.wisc.edu/cbe/wok/whatis.html

  1. The WWW Cell Biology Course

This site is designed to be a general cell biology course. It is partially complete. There are links from an image of a cell to images and descriptions of cell organelles. The site currently includes cell types, parts of the cell and cell division. http://www.cellbio.com/courses.html

  1. cells.de--The Online Service for Cell Biology

This site contains numerous videos and animations of cell structure and cell function. It includes virtual "fly throughs" of animal and plant cells as well as narrated movies of organeeles.

http://www.cells.de/cellseng/1medienarchiv/index.jsp

  1. MIT Hypertextbook--Photosynthesis Directory

This site is part of the much larger MIT Hypertextbook of Biology site that has already been reviewed by MERLOT. This part of the site provides an excellent discussion of photosynthesis suitable for college level biology students. http://web.mit.edu/esgbio/www/ps/psdir.html

  1. Bioinformatics and Systems Biology: At the Crossroads of Biology, Engineering and Computation

Traditional biological research has relied on a "deconstructive" mode where piece-wise analysis of the components of complex systems was carried out in detail. The genome projects have spurred the discovery of new genes/molecules to add to the existing inventory of "parts" that make up living entities. With the availability of this information and the development of increasingly powerful tools for global analysis of gene and protein expression (chips/arrays), a "constructionist" bias has begun to appear in biology. There is a growing desire to put integrate the piecewise knowledge and achieve a deeper understanding of how living systems work as total entities. "This attempt to develop a true understanding of how living beings are "engineered" so that the emergent properties of the assembled parts serve the necessary biological functions is known generically as "systems biology."(a quote from Ron Germain at NIH). Further, this understanding and the concomitant measurements provide the basis for quantitative and predictive modeling of biological function at the level of large cellular networks. In this talk I will present how integrated analysis of data can provide insights into various aspects of the intracellular networks. Combining proteomic, small molecule and transcriptional data along with legacy knowledge, we can obtain a more detailed and dynamic picture of the response of a cell to input. Not surprisingly, the biological "context" of the input determines the response and the similarities in cellular responses arise from functional modularity within the networks.

https://www.nanohub.org/index.php?option=com_resources&id=171

  1. Beginner's Guide to Molecular Biology

This site contains links to a series of tutorials on basic molecular biology topics. The tutorials contain both text and animations. Topics covered are cell biology, mitosis, meiosis, DNA and RNA structure, protein synthesis, and molecular engineering.

http://www.rothamsted.bbsrc.ac.uk/notebook/courses/guide/

  1. Bio Links

Minnesota State University Moorhead’s list of links by topic for biology students. Topics include: Anatomy/Histology/Physiology; Animals/Zoology; Astrobiology; Bioethics; Biology, Botany (Plants, Algae, Fungi),Cellular & Molecular Biology/Biotechnology; Developmental Biology/Embryology; Ecology/Environment/Endangered Species/ Conservation/Agriculture; Biology Education; Science Education; Evolution/Origins/Paleontology/Fossils; Genetics; History Of Biology; Immunology; Marine Biology; Medicine/Disease; Microbiology; Neurobiology; Parasites; Plants/Botany/Algae/Fungi; Virology/Virus; Zoology/Animals. http://www.mnstate.edu/weibust/internetresbiostu.htm

  1. Optic microscopy

This is an exiting site with its wide range of topics in its gallery. Main features are photo gallery,cell biolog,cell, virtual microscopy, optics, chip shots, silicon zoo, DNA gallery, Vitamines, and many more. It also contains. The virtual transistor (java tutorials) the virtual SEM (java) etc., it contains all fields of science physics, chemistry, biology, and its sub divisions. http://micro.magnet.fsu.edu/index.html

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