Layer 1 Sequencing support

This part of bioinformatics addresses problems that occur even before the genomic sequence is available. The object is to interpret experimental data that are generated by sequencing efforts. Problems to be addressed here are base calling, i.e. the interpretation of the signals output by sequencers in terms of nucleic acid sequences, physical mapping, i.e. providing a rough map of relevant marker loci along the genome, and fragment assembly, i.e. the process of piecing together short segments of sequenced DNA to form a contiguous sequence of the genome or chromosome. Layer —1 plays a special role, since it is both a subproblem and an application scenario. The application-oriented character of this problem originates from its close relationship with the applied sequencing procedure. The two competing approaches to sequencing the human genomes, namely whole-genome-shotgun sequencing, as performed by Celera Genomics [4] and BAC-assembly as performed by the publically funded human genome project [5], which lead to quite different approaches for assembly, have illustrated this point very visibly. We chose to discuss this layer in Volume 2 (Chapter 2 by Xiaoqiu Huang).


Search for new drugs

Genetic variations


A schematic overview of bioinformatics

—k Data handling, Algorithms Statistics, Visualisation

Molecular Interactions

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Optimizing therapies

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Structure prediction Sequence analysis

A schematic overview of bioinformatics

After exercising layer —1 of bioinformatics successfully the raw genomic sequence is available.

Continue reading here: Layer 1 Analysis of nucleic acid sequences 5 oclock position in Figure

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