GeneDesign is a web-based program for the design of synthetic genes. It consists of several modules that automate the tasks associated with the manipulation of synthetic sequences. There are many ways to use GeneDesign. Probably the most common is to start with the protein sequence of an interesting gene and proceed through reverse translation to oligo design. This path is explored in the Design a Gene section of the manual. Each GeneDesign module can be accessed and used individually, as well. Each module is covered in the GeneDesign Modules section of the manual.

GMT is an open source collection of ~60 tools for manipulating geographic and Cartesian data sets (including filtering, trend fitting, gridding, projecting, etc.) and producing Encapsulated PostScript File (EPS) illustrations ranging from simple x-y plots via contour maps to artificially illuminated surfaces and 3-D perspective views. GMT supports ~30 map projections and transformations and comes with support data such as coastlines, rivers, and political boundaries. GMT is developed and maintained by Paul Wessel and Walter H. F. Smith with help from a global set of volunteers, and is supported by the National Science Foundation. It is released under the GNU General Public License.

GeoMapApp is an integrated mapping application developed at Lamont-Doherty Earth Observatory. GeoMapApp is currently interfaced with: Multibeam ping data archived in the LDEO database; Trackline geophysics in the LDEO database; Ridge PetDB - the Ridge petrology database. Marine multichannel seismic surveys, including UL9905, a high-resolution MCS survey of the northern Gulf of California. Select your Operating system to install GeoMapApp on your computer: MS Windows, Unix/Linux, Macintosh. Learn more about GeoMapApp by reading the Development History pages and browsing the Related Documents.

The Global Change Master Directory (GCMD) offers online descriptive information about environmental and Earth science data sets located throughout the world. As an additional service for the Earth sciences community, GCMD offers descriptive information about commercial and non-commercial data services that assists its user community in analyzing, processing, and evaluating Earth science data sets. The system is based on the same architecture and design of the current GCMD data system. A service description is entered into a searchable data base. The Service Entry Resource Format (SERF) record contains all pertinent information to the service.

Great circle mapper displays a map depicting the great circle path between locations and computes the distance along that path. A great circle path is the shortest path on the surface of a sphere between two points on that sphere. Technically, the term geodesic path should be used in this page since Earth is not a true sphere, but the great circle terminology is common usage. Locations may be FAA, IATA, or ICAO airport codes, or latitude and longitude.

"I want to..." or "I need to" or "How do I?" These are all questions we all ask all the time. This is a small collection of resources that will help to answer those questions. It is not complete, nor will it ever be. I will be adding to this on a regular basis, so feel free to bookmark it and come back and visit. Stuff includes utilties for sharing photographs, files, calendars, share research, create an online spreadsheet, etc.

This program is intended to make working with the Generic Mapping Tools (GMT) easier. iGMT provides a graphical user interface for GMT and is written in the Tcl/Tk computer language. Besides supplying a user friendly way of handling GMT, iGMT comes with built-in support for many different geoscientific data sets, such as topography, gravity, seafloor age, hypocenter catalogs, plate boundary files, hotspot lists, CMT solutions etc.

LandSerf is a freely available Geographical Information System (GIS) for the visualisation and analysis of surfaces. Applications include visualisation of landscapes; geomorphological analysis; gaming development; GIS file conversion; map output; archaeological mapping and analysis; surface modelling and many others. It runs on any platform that supports the Java Runtime Environment (Windows, MacOSX, Unix, Linux etc.).

Build your own Google or Yahoo mashup maps. Share and explore.

Find free math and science downloads for Mac OS X from the official Apple website. Find graphing calculators, physics and chemistry homework helpers, bioinformatics programs, astronomy tools, research organizers, and more.

MB-System is an open source software package for the processing and display of bathymetry and backscatter imagery data derived from multibeam, interferometry, and sidescan sonars. The source code for MB-System is freely available (for free) by anonymous ftp (including "point and click" access through these web pages). A complete description is provided in web pages accessed through links below. MB-System was originally developed at the Lamont-Doherty Earth Observatory of Columbia University (L-DEO) and is now a collaborative effort between the Monterey Bay Aquarium Research Institute (MBARI) and L-DEO. The National Science Foundation has provided the primary support for MB-System development since 1993. The Packard Foundation has provided significant support through MBARI since 1998. Additional support has derived from SeaBeam Instruments (1994-1997), NOAA (2002-2004), and others.

Melts is a software package for modeling crystallization of magmatic systems. MELTS is written in ANSI C with an X11/Motif Graphical User Interface. Executable versions are available for a wide variety of "UNIX"-level workstations.

Minimotif Miner (MnM) analyzes protein queries for the presence of short functional motifs that, in at least one protein, has been demonstrated to be involved in posttranslational modifications, binding to other proteins, nucleic acids, or small molecules, or proteins trafficking. The low sequence complexity of motifs, suggest that false positive motifs may occur and any prediction made by MnM should be experimentally tested. To aid in the selection of motifs, MnM ranks motifs based on frequencies in proteomes, protein surface prediction, and evolutionary conservation. Using annotation of motifs in the Swiss-Prot database, we have found that higher scores are globally correlated with experimentally validated motifs when compared to a similar analysis using randomized motifs with the same amino acid composition. We suggest that the known biology of the protein of interest and of motifs be used in selecting motifs for experimental study.

Ready-to-Use Tutorials on Molecular Structure - For most resources below, the free MDL Chime plugin (en espa�l) is required; Netscape 4.08/4.7x/4.8x works best. Netscape 6 and 7 do not work! Some of the resources below have been upgraded to work properly in Windows Internet Explorer (Win-IE) (but not Macintosh IE) -- see Chime: Browsers, Platforms, Installation, Troubleshooting. The resources below work on Windows or Macintosh PPC, but can also work on linux, SGI, and other unix platforms. MDL Chime: How to Use It. Amino Acid Quizzer. All of the resources on this page can be DOWNLOADED for use off the Internet (class projection or computer lab) or to see how they are constructed.

CQUEST stands for "Carbon Query and Evaluation Support Tools". This page provides access to geographic data from NASA Ames Research Center, Ecosystem Science and Technology Branch for carbon sequestration predictions throughout the United States. This Viewer application allows users to display CASA-CQUEST data interactively as a map, customize the view, print image files, and obtain data values in tabular format. Map tools allow users to navigate around an image, zoom in and out, identify features, and perform other advanced query functions.