PMID- 17951795
OWN - NLM
STAT- MEDLINE
DCOM- 20071113
LR  - 20071022
IS  - 1064-3745 (Print)
IS  - 1064-3745 (Linking)
VI  - 402
DP  - 2007
TI  - Genome-scale probe and primer design with PRIMEGENS.
PG  - 159-76
AB  - This chapter introduces the software package PRIMEGENS for designing 
      gene-specific probes and associated PCR primers on a large scale. Such design is 
      especially useful for constructing cDNA or oligo microarray to minimize 
      cross-hybridization. PRIMEGENS can also be used for designing primers to amplify 
      a segment of a unique target gene using reverse-transcriptase (RT)-PCR. The input 
      to PRIMEGENS is a set of sequences, whose primers need to be designed, and a 
      sequence pool containing all the genes in a genome. It provides options to choose 
      various parameters. PRIMEGENS uses a systematic algorithm for designing 
      gene-specific probes and its primer pair. For a given sequence, PRIMEGENS first 
      searches for the longest gene-specific fragment and then designs best PCR product 
      for this fragment. The 2.0 version of PRIMEGENS provides a graphical user 
      interface (GUI) with additional features. The software is freely available for 
      any users and can be downloaded from http://digbio.missouri.edu/primegens/.
FAU - Srivastava, Gyan Prakash
AU  - Srivastava GP
AD  - Digital BiologyLaboratory, Computer Science Department University of 
      Missouri-Columbia, USA.
FAU - Xu, Dong
AU  - Xu D
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, Non-P.H.S.
PT  - Review
PL  - United States
TA  - Methods Mol Biol
JT  - Methods in molecular biology (Clifton, N.J.)
JID - 9214969
RN  - 0 (DNA Primers)
SB  - IM
MH  - Algorithms
MH  - DNA Primers/*chemistry/genetics
MH  - *Genome/genetics
MH  - Internet
MH  - *Reverse Transcriptase Polymerase Chain Reaction/methods
MH  - *Sequence Analysis, DNA
MH  - *Software
MH  - *User-Computer Interface
RF  - 9
EDAT- 2007/10/24 09:00
MHDA- 2007/11/14 09:00
CRDT- 2007/10/24 09:00
PHST- 2007/10/24 09:00 [pubmed]
PHST- 2007/11/14 09:00 [medline]
PHST- 2007/10/24 09:00 [entrez]
AID - 1-59745-528-8:159 [pii]
AID - 10.1007/978-1-59745-528-2_8 [doi]
PST - ppublish
SO  - Methods Mol Biol. 2007;402:159-76. doi: 10.1007/978-1-59745-528-2_8.