Bioinformatic tools are software programs that are designed for extracting the meaningful information from the mass of molecular biology / biological databases & to carry out sequence or structural analysis.
Bioinformatics Tools ( Software )
There are both standard and customized products to meet the requirements of particular projects. There are data-mining software that retrieve data from genomic sequence databases and also visualization tools to analyze and retrieve information from proteomic databases. These can be classified as homology and similarity tools, protein functional analysis tools, sequence analysis tools and miscellaneous tools. Here is a brief description of a few of these, everyday bioinformatics is done with sequence search programs like BLAST, sequence analysis programs, like the EMBOSS and Staden packages, structure prediction programs like THREADER or PHD or molecular imaging/modelling programs like RasMol and WHATIF.
1. The end user (the biologist) may not be a frequent user of computer technology ; 2. These software tools must be made available over the internet given the global distribution of the scientific research commun.
Experiment Tools ( Kit )
There are both standard and customized products to meet the requirements of particular projects. There are data-mining software that retrieve data from genomic sequence databases and also visualization tools to analyze and retrieve information from proteomic databases. These can be classified as homology and similarity tools, protein functional analysis tools, sequence analysis tools and miscellaneous tools. Here is a brief description of a few of these, everyday bioinformatics is done with sequence search programs like BLAST, sequence analysis programs, like the EMBOSS and Staden packages, structure prediction programs like THREADER or PHD or molecular imaging/modelling programs like RasMol and WHATIF.
1. The end user (the biologist) may not be a frequent user of computer technology ; 2. These software tools must be made available over the internet given the global distribution of the scientific research commun.
Bioinformatics Tools ( Software )
Experiment Tools ( Software )
| Number | Kit Name | SOP | Subproject | Literature |
|---|---|---|---|---|
| 1 | TRIzol reagent | RNA quality parameters, such as concentration, fragment size, and RNA integrity number (RIN), 28S/18S, and OD (260/280; 260/230), were examined using an Agilent 2100 Bioanalyzer and a NanoDrop 1000 spectrophotometer. Qualified RNA samples (RIN > 6 and total amount > 5 μg) were processed for library construction. | ||
| 2 | TRIzol reagentDynabeads mRNA Purification Kit (Invitrogen, Grand Island, NY, USA) | |||
| 3 | RNA fragmentation reagent (Ambion, Austin, Texas, US) | |||
| 4 | SuperScript™II Reverse Transcriptase (Invitrogen, Grand Island, NY, USA) | |||
| 5 | RNase H (Invitrogen, Grand Island, NY, USA) | |||
| 6 | DNA polymerase I (New England BioLabs, Ipswich, MA, USA). | The double-stranded cDNA then underwent end-repair, a single ‘A’ base addition, adapter ligation, and size selection on agarose gels (250 ± 20 bp). | ||
| 7 | Agilent 2100 Bioanalyzer | |||
| 8 | ABI StepOnePlus Real-Time PCR machine | |||
| 9 | Illumina HiSeq2000 | Each library was sequenced for 150 bp paired-ends to generate ca. 2.5 Gb raw data for each specimen |
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