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Transcriptions 0.8

Transcriptions 0.8


A Cocoa Objective-C 2.0 rtf-Text Editor optimized for fast transcription of audio- or video material. more>>


A Cocoa Objective-C 2.0 rtf-Text Editor optimized for fast transcription of audio- or video material
Features:
- Media with tape behavior
- Customizeable media-control shortcuts
- Timestamps
- Text substitution
- Footpedal-support

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Added: 2008-08-11 License: Freeware Price:
10 downloads
DNA Artist X 1.0

DNA Artist X 1.0


DNA Artist X is a program including small Molecular Biology programs. Y more>>

DNA Artist X 1.0 is a program including small Molecular Biology programs. You can do things like search for Compatible Enzyme ends or do a PCR Melting point temperature calculation with different formulas, or you can run a Digest Preview of an Agarose Gel etc.

DNA Artist is an Internet Application, which means it works like an Internet browser (e.g. Netscape Navigator or Internet Explorer).

The Application Navigator is the central access point of DNA Artist,it connects to the Internet and downloads small files, which are interpreted from the application and compiled into a form that you can actually use these modules as individual programs.

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Added: 2002-12-01 License: Freeware Price:
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Gene Construction Kit 3.0.3

Gene Construction Kit 3.0.3


Gene Construction Kit is a high-speed and powerful program which allows graphic manipulation of DNA sequences and sophisticated plasmid drawing options. more>>

Gene Construction Kit 3.0.3 is a high-speed and powerful program which allows graphic manipulation of DNA sequences and sophisticated plasmid drawing options. It has an award winning interface design that allows graphic manipulation of DNA sequences in addition to providing sophisticated drawing capabilities for Mac and Windows users.

Enhacements:

  • (W) Some functions send active window to the background
  • (M/W) page setup parameters are not being saved
  • (W) drag file to open doesn't work
  • (W) crash during export
  • (W) Windows Double-click to open files will not work if application already open
  • (M/W) Mark Sites doesn't remember previous settings
  • (M) Illustration - problems with enzyme cut site information display
  • (M/W) Three letter file extension displayed in construct title<<less
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Added: 2009-10-03 License: update/patch Price: Notavailable
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DNA/Protein Converter 1.0

DNA/Protein Converter 1.0


DNA/Protein Converter is a widget to convert sizes between DNA and protein. more>>

DNA/Protein Converter 1.0 is a widget to convert sizes between DNA and protein.

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Added: 2006-02-15 License: Freeware Price:
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Translate widget 0.7

Translate widget 0.7


Translate widget - DNA/Protein conversions, sequence scrambler and more more>>
Translate widget is a DNA and protein manipulation for molecular biologists.
Translate widget is a DNA/protein conversion and manipulation widget.
Translates (DNA to protein), reverse translates (protein to DNA), makes antisense strand, formats sequence, scrambles sequences.
Main features:
- Translate DNA -> Proteins
- Reverse translate protein -> DNA
- Format sequences
- Scramble sequences
- Make antiparallel (complementary) strand.
Enhancements:
- Bug fix - can now generate antiparallel with "N"s.
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Added: 2005-12-30 License: Freeware Price:
1402 downloads
Transform 0.10.5

Transform 0.10.5


Transform - Common text & DNA / protein sequence transformations more>>
Transform is a tool created to do often used text / sequence transformations. I find Excel to be brilliant for making pretty sequences and sequence alignments - however each character needs to be in a separate cell.
Main features:
- Insert Tab before / after each character
- Insert Return after each character
- Keep only letters a-Z
- Format in blocks of 3, 10, 50, 100
- Remove leading / trailing / multiple spaces
- Reverse / complement/ invert DNA sequence
- Translate DNA sequence in frame 1 / 2 / 3
- Backtranslate protein into human / E. coli DNA (using the most frequently used codon)
- Convert 3-Letter AminoAcid code into 1-Letter code
- Convert 1-Letter AminoAcid code into 3-Letter code (spaced / tabbed)
- Get protein sequence info
If there are other transformations youd like just drop me a line .
Please note that this program will run as it is - there is no installation, no files will be put anywhere (registry, system, etc in the Windows version) so it should even run if you are on "managed computers" like we are in our lab (which is a pain in the neck in 99% of all cases - IT support should be there for us, not the other way round).
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Added: 2007-06-05 License: Freeware Price:
873 downloads
DNA Molar Converter Widget 1.2

DNA Molar Converter Widget 1.2


DNA Molar Converter Widget - Widget for molar coversions more>>
The DNA Molar Converter widget is a Dashboard widget that allows to perform molar conversions for nucleic acids according to size.
Enhancements:
- You can now perform conversions from the nucleic acid size field.
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Added: 2006-02-24 License: Freeware Price:
762 downloads
 
Other version of DNA Molar Converter Widget
DNA Molar Converter Widget 1.2DNA Molar Converter Widget - A great dashboard widget for molar ...DNA Molar Converter Widget - A great dashboard widget for molar
Price: FREE
License:Freeware
Download (152KB)
179 downloads
Added: 2006-02-24
SNP score 1.1

SNP score 1.1


Program for the the analysis of SNP and the possible effects on having two different nucleotides might have on the binding of Transcription Factors more>> <<less
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Added: 2009-06-13 License: GPL Price: FREE
214 downloads
DNA/Protein Converter Widget 1.0

DNA/Protein Converter Widget 1.0


The DNA/Protein Converter widget allows to perform size conversions between DNA and protein more>>
DNA/Protein Converter Widget 1.0 is a useful tool which allows you to perform size conversions between DNA and protein.

Requirements:

  • Mac OS X 10.4 or later.
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Added: 2006-02-16 License: Free Price:
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Jott for iPhone 1.03

Jott for iPhone 1.03


Jott for iPhone 1.03 has come as a convenient and comprehensive tool with the ability to turn your voice into notes. more>>

Jott for iPhone 1.03 has come as a convenient and comprehensive tool with the ability to turn your voice into notes. Capture your to-dos as quickly as you can say "Get strawberries for dessert." Organize those items into lists and cross them off with a swipe of your finger when you're done. All of your lists are backed up on Jott.com, where you can manage your lists when you're in front of a computer. Once you've downloaded the app, you can use Jott's other features by simply calling (866) JOTT-123 from the mobile phone number you enter when you sign up.

Enhancements:

  • Rectifies issues for some users such as slow registration, long transcription times, and stability issues.
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Added: 2008-08-02 License: Freeware Price: itunesaccountrequired
82 downloads
3DNA 1.5

3DNA 1.5


3DNA - Analyze and rebuild 3D nucleic acid structures more>>
3DNA is a versatile package for analyzing and rebuilding three-dimensional nucleic acid structures, based on a standard reference frame.

In its core, the software uses a simple, yet mathematically rigorous and geometrically sensible, scheme for calculating a complete set of local base-pair, step, and helical parameters, and allows for exact rebuilding of a structure based on these parameters.

Unique features of 3DNA include automatic classification of a dinucleotide step as A-, B-, or TA-like based on the positioning of the phosphorus atoms, and the generation of "standardized" base stacking diagrams. The rebuilding routines give Calladine-Drew style schematic representations of DNA as well as full atomic models with the sugar-phosphate backbone.


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Added: 2006-02-17 License: Freeware Price:
1356 downloads
CLC DNA Workbench 5.5

CLC DNA Workbench 5.5


CLC DNA Workbench 5.5 is a helpful program that creates a software environment enabling users to make a large number of advanced DNA sequence analyses, combined with smooth data management, and excellent graphical viewing and output options. more>>

CLC DNA Workbench 5.5 is helpful program that creates a software environment enabling users to make a large number of advanced DNA sequence analyses, combined with smooth data management, and excellent graphical viewing and output options. This 4-week fully functional demo of CLC Gene Workbench provides a wide range of advanced DNA sequence analyses, and is based on the same user-friendly and integrated software environment as CLC Free Workbench.

Major Features:

  1. DNA sequence analysis
    • Editor for graphically and algorithmically advanced primer design
    • Assembly of DNA sequence data
    • Multiplexing - Process Tagged Sequences has an option to filter away groups with few sequences.
    • Molecular cloning
    • Automatic SNP annotation of sequences
    • Local complexity region analyses
    • Reverse translation from protein to gene, based on translation tables from a number of species
    • Advanced restriction enzyme analysis and management
    • Dot plot based analyses
    • DNA statistics report including a number of characteristics of a given molecule
    • NCBI sequence data search
    • Access to web info from PubMed
  2. Pattern search
    • Search for sequence matches
    • Motif search for basic patterns
    • Motif search using regular expressions
    • Motif search with ProSite patterns
    • Pattern discovery (unknown patterns)
  3. Database searches
    • Web-based sequence search using BLAST
    • BLAST on local databases
    • Build local BLAST databases
    • GenBank Entrez searches
    • UniProt searches (SwissProt/TrEMBL)
    • PubMed lookup
    • Web-based lookup in UniProt, NCBI, and Google
    • SNP annotation using BLAST
  4. Project and data management
    • Full integration of data input, data management, calculation results, and data export
    • Detailed history log
    • All types of files can be saved in local projects, and launched from the program
    • Import and export of data in a large number of file formats
    • Option of working in several active workspaces at a time, enabling simultaneous work on multiple projects
  5. Other bioinformatics features
    • DNA, RNA and protein sequence editor displaying both linear and circular molecules
    • Multiple alignment of DNA, RNA, and proteins
      • Two proprietary algorithms
      • ClustalW
      • Muscle
      • T-Coffee
      • MAFFT
      • Kalign
    • Joining multiple alignments into one
    • DNA, RNA, and protein alignment editor
    • Interactive logo graphs along both DNA, RNA and Protein alignments
    • Batch processing of analyses on multiple sequences in one work-step
    • Advanced re-alignment and fix-point alignment option
    • Manual annotation of sequences
    • Dot plot based analyses
    • Local complexity region analyses and complexity plots
    • Gap fraction graphs
    • G/C content analysis and graphs
    • Advanced pairwise comparison
    • Extract annotations

Enhancements:

  • Gateway cloning. Simple and easy-to-use support for creating Gateway entry and expression clones.
  • Search for matches among all your saved primers. The Find Binding Sites tool has been greatly improved to now allow you to search among all your primers. In addition, you also get a tabular output of the binding sites and possible fragments.
  • In silico PCR: create PCR product based on primer pair and template sequence (including primer extensions). As part of the improve...

Requirements:

  • Mac OS X 10.4 or later (including Intel-based Macs)
  • Windows 2000, XP, Vista, or Windows 7
  • Linux: Redhat or SuSE
  • 256 MB RAM required
  • 2 GB RAM recommended
  • 1024 x 768 display recommended

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Added: 2009-10-07 License: update/patch Price: Notavailable
downloads
 
Other version of CLC DNA Workbench
CLC DNA Workbench 5.2CLC DNA Workbench is considered as a flexible program that provides a wide ...CLC DNA Workbench 5.2 is considered as a flexible program that provides a wide
Price: Notavailable
License:update/patch
Download (36.2MB)
downloads
Added: 2009-08-17
CLC DNA Workbench 5.1Advanced DNA sequence analyses. CLC DNA Workbench 5
License:update/patch
Download (36MB)
17 downloads
Added: 2009-05-31
CLC DNA Workbench 5.0.2CLC DNA Workbench is designed to be a 4-week completely powerful demo of ...CLC DNA Workbench 5.0.2 is designed to be a 4-week completely powerful demo of
License:update/patch
Download (36.9MB)
downloads
Added: 2009-03-12
Sequence Analysis 1.6

Sequence Analysis 1.6


Sequence Analysis - DNA/protein sequence analysis more>>
Sequence editing, reverse complement, protein translation, ORF finding, secondary structure, composition, isoelectric point, primer design, pairwise comparison, publish layout, sequence reformatting. Fetches sequence entries directly from the NCBI via Accession number or GID. Reads most sequence formats.
This (Java) application is a collage of coding projects which I have written over the past several years for various clients in my work as a bioinformatics consultant. These clients have graciously allowed me to release these works into the public domain as freeware.
Enhancements:
- Fixed launching conflict introduced with QuickTime 7.0.4
- Digest: Using "REBase 601" enzyme list
- Allow launching with Java 5 (JDK 1.5).
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Added: 2006-01-18 License: Freeware Price:
1389 downloads
Serial Cloner 1.3

Serial Cloner 1.3


A DNA sequence manipulation and visualization software. more>>


A molecular biology software. It provides tools with an intuitive interface that assists you in DNA cloning, sequence analysis and visualization. Serial Cloner has been developed to provide a light molecular biology software to both Macintosh and Windows users. Serial Cloner reads and write DNA Strider-compatible files and import and export files in the universal FASTA format (as well as in pDRAW32 format). Powerful graphical display tools and simple interfaces help the analysis and construction steps (adaptor, PCR, Gateway cloning) in a very intuitive way.

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Added: 2008-03-17 License: Freeware Price:
90 downloads
 
Other version of Serial Cloner
Serial Cloner 1.2.5Serial Cloner assists you in DNA cloning, sequence analysis and visualisation. Serial Cloner 1 ... Serial Cloner reads and write DNA Strider-compatible files and import and export files in the
License:Freeware
Download (6.3MB)
1017 downloads
Added: 2007-04-24
TargetScanner 1.0

TargetScanner 1.0


TargetScanner is a GUI that predicts mammalian MicroRNA Targets more>>
TargetScanner is designed as a GUI on top of the UNIX targetscan application made by Lewis et al, that predicts mammalian MicroRNA Targets.

These microRNAs are very similar to the short interference RNAs that are used in iRNAi, but instead of inducing the degradation of a proteins messenger RNA, microRNA work by suppressing its translation.

It is thought that these microRNAs play an important role in the control of transcription factors.

TargetScanner is a tool that helps you find potential microRNA target sites in the UTRs of gene transcripts.
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Added: 2007-05-10 License: Freeware Price:
899 downloads
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