Amplification and analysis of whole genome and whole transcriptome libraries generated by a dna polymerization process

A method of preparing a plurality of nucleic acid molecules having known constant region at each end, comprising:

• a) obtaining a sample comprising nucleic acid molecules;
• b) subjecting said nucleic acid molecules to a population of primers to form a nucleic acid molecule/primer mixture, wherein the primers of the population have a nucleotide sequence that is substantially non-self-complementary and substantially non-complementary to other primers in the population, wherein the primers are composed of a constant region and a variable region, the constant region being positioned 5′ to the variable region, wherein primers in the population comprise non-complementary and non-self-complementary nucleotides selected from guanines and adenines;
• cytosines and thymidines/uridines;
• adenines and cytosines;
• or guanines and thymidines/uridines in a relative proportion effective to render the polynucleotides substantially incapable of at least one of the following:
• self-hybridization;
• self-priming;
• hybridization to another polynucleotide in the plurality;
• or
• initiation of a polymerization reaction in the plurality;
• and
• c) subjecting said nucleic acid molecule/primer mixture to a polymerase under conditions to generate the plurality of molecules including the known constant region at each end.