Sentence examples for template with sequence from inspiring English sources

For each sample, gene expression PCR was carried out using 2 µl of cDNA template with sequence specific primers.

If a structure template with sequence identity of >50% is found for a query protein, homology modeling could be chosen as the best in silico method with an accuracy equal to low-resolution X-ray predictions [ 9].

The extracted amount of gDNA was used as a template with sequence-specific primers mentioned below in Table 2 to begin the process of cloning of SPT15 and TAF23 genes in this study.

To make a strict test, we only include template proteins released before May of 2006 for this test, and we also excluded the templates with sequence identity >20% to the query.

We note that the homology exclusion cutoff used here is more stringent than that used by Bradley et al [ 13], who only excluded templates with a PSI-BLAST E-value < 0.05 but without sequence identity cutoff, and that used by Zhang et al [ 12], who only excluded the templates with sequence identity > 30% but without PSI-BLAST checking.

Therefore, to greatly enlarge the pool of useful models, it is essential to improve fold recognition and alignment method for the sequence and template with <30% sequence identity.

The most successful type of structure prediction, known as homology modeling, relies on the existence of a "template" structure with sequence similarity to the protein being modeled; structural genomics' goal is to provide sufficient representation in solved structures to model most of those that remain.

First, MUSTER, PPI-1, SAM-T02 and PROSPECT2 use an internal I-TASSER template library with sequence identity <70% from http://zhanglab.ccmb.med.umich.edu/library/; SPARKS2 and SP3 use another internal library of sequence identity <40%; HHSEARCH uses the library downloaded from ftp://ftp.tuebingen.mpg.de/pub/protevo/HHsearch/databases, which has also a 70% sequence identity cut-off.

Possible alternative binding sites were predicted using RNA RNA thermodynamics with the RNAstructure program., The 61 nucleotide sequence corresponding to the multibranch structure was transcribed from a double-stranded DNA oligonucleotide template with antisense sequence 5′-TmGmGATCCCCTTAGTCAGAGGTGACAGGATTGGTCTTGTCTTTAGCCATTCCATGAGAGCCC TATAGTGAGTCGTATTAGAATTC-3′.

HR requires a template with sufficient sequence identity to the damaged strand in order to direct repair.

Next, E. coli cells carrying plasmids containing either WT T7A2 template (pT7BlueA2WT) or T7A2 template with ST sequence (pT7BlueA2ST) were treated with chloroacetaldehyde (CAA).