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Products >> Upgrades >> Array Designer
The upgrade accommodates the latest genomic databases available at the NCBI-BLAST server and the recent changes made by NCBI on its web sites and services to improve security and privacy.
As per the US government mandate, NCBI has made changes on its web sites and services to improve the security and privacy. Array Designer 4.44 accommodates these changes.
The upgrade accommodates the latest genomic databases available at the NCBI-BLAST server and fixes to reported problems.
Latest changes to the genomic databases of NCBI-BLAST along with fixes to reported problems are accommodated in this version.
The latest changes at the NCBI BLAST, including latest genomic databases and fixes to reported problems are also accommodated.
The upgrade accommodates the latest genomic databases available at the NCBI BLAST server and fixes to reported problems. The version is now compatible with Windows 8 and 64-bit Windows OS.
The upgrade accommodates the changes at the NCBI BLAST server, support for all the genomic databases at NCBI and includes fixes to reported problems.
The upgrade offers compatibility with Windows 7.
The upgrade includes fixes to reported problems.
NCBI recently redesigned the BLAST pages, changing the default interface. The support for old pages was removed on June 11, 2007 and a few more databases were added. Array Designer 4.24 is released to accommodate these changes.
The upgrade accommodates the changes at the NCBI BLAST server.
The upgrade accommodates the changes at the NCBI BLAST server.
Includes support for the latest genomic databases available at NCBI.
Design Tiling probes: Version 4.20 of Array
Designer designs evenly tiled probes that are tiled across
the genome which facilitates genome wide analyzes of many
important biological functions including site of chromatin
modification and sites of DNA methylation.
The new version also designs overlapping probes tiled across
genome to cover an entire genomic region of interest facilitating
genome wide analysis.
Includes support for the latest genomic databases available at NCBI.
With Array Designer 4.11, you can select an E-value for avoiding homologies and manage your projects better.
We are pleased to announce version 4.10 of Array Designer
which includes the following:
Resequencing Array Design- In addition to
standard probes, you can now design resequencing arrays. With
custom resequencing arrays, you can detect SNP and other sequence
variations in a large number of samples for applications such
as biowarfare pathogen studies, predisposition and resistance
to disease or discovering the genetic basis of phenotypic
traits.
The challenge in designing arrays for resequencing by hybridization
is to achieve the lowest possible false positive rate. With
version 4.10 simply connect to the popular Repeat Masker using
the handy link and Array Designer will avoid creating spots
that may generate false positives.
Project BLAST- One of the vexing problems
in resequencing array design is false base calls caused by
inter-template cross hybridization. Array Designer offers
an innovative and unique Project BLAST capability
to identify these regions and recommends a multi-chip solution.
With this special BLAST function, you can BLAST search all
the sequences in the project against each other. With the
homologies observed, you can choose which sequence or sections
of a sequence can be arrayed on the same chip. As observed,
highly homologous sequences lead to cross hybridization and
compromised data quality. This feature is very useful if you
have to array more than one sequence on a single chip.
Desktop BLAST- You can now BLAST search sequences
against local custom databases without the need of setting
up a server on a separate machine. Simply save the sequence
files (.txt or .fa) on your computer and ask Array Designer
to BLAST search your query sequence against them.
Array Designer connects to the NCBI server to BLAST search your sequences and automatically interpret the results to design specific primers.
NCBI's BLAST server underwent a few changes over the last few days. One of the most significant being the availability of a new version of the BLAST formatter. To accommodate these changes we have released an upgrade. With this upgrade you will now be able to BLAST search your sequences seamlessly.
Whole Genome Array Design- With Array Designer you can study entire organisms effortlessly, characterizing transcriptomes, discovering differentially and alternatively spliced transcripts, DNA sequence variation in individuals or populations, and comparative genome hybridization (CGH).
Design Tiling primers- design tiling primers for small to medium sized genome that helps identify the DNA binding protein targets, methylome analysis, characterization of transcriptome.
The Human, Rat and Mouse genome databases on the BLAST server were reorganized by NCBI. The databases were further classified into genome (all assemblies) and genome (reference only). To accommodate these changes we released the upgrade.
Automatic interpretation of BLAST results to design highly specific PCR primers.
Ability to BLAST search oligos and templates against all the nucleotide redundant databases available at NCBI to verify the specificity of design.
Comprehensive support for long probe design.
Includes support for the latest genomic databases available at NCBI.
Ability to load sequences directly from dbSNP.
A Mac and Linux version is also available.
Simplified web based activation scheme (Array Designer customers, please click here for details).
Array Designer designs thousands of primers and probes for oligo and cDNA microarrays in seconds. It designs probes for SNP detection, microarray gene expression and gene expression profiling. In addition, comprehensive support for tiling arrays and resequencing arrays is available.
Array Designer designs highly specific oligos by interpreting the results of a BLAST search performed against any genomic database available at NCBI or a local custom database. Any significant homologies identified are automatically avoided while designing oligos. Repeat regions are identified and automatically avoided.