Bioinformatics core services, the IBMCP case

MPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGMPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGMPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKCDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMMPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKCDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKCDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKCDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGTACATCGGGTCAAGCTAAGCGGAAAGAAAGCTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCAAAGCTAAGCGCTGCTAATCAAAGCTAAGATCGGGTGGGGGTCAAAGCAAAGCTAATCAAAGCTAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCGGAAAGAAAGCTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAGCTAATCGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCAAAGCTAAGCGCTGCTAATCAAAGCTAAGATCGGGTGGGGGTCAAAGCAAAGGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCAAAGCTAAGCGCTGCTAATCAAAGCTAAGATCGGGTGGGGGTCAAAGCAAAGCTAATCAAAGCTAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCGGAAAGAAAGCTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCAAAGCTAAGCGCTGCTAATCAAAGCTAAGA1010110111010110101010111111000110101101001000010101111010001101000111011010010000101011110100011101011010101011111100101010101101000010100010101010111000010110010000101011110100010110101101110101101010101111110001101010001110110100100001010111101000110111010110101010111111010110101010111111001010101011101011110100010110101101110101101010101111110001101011010010000101011110100011011101011010101011111101011010101011111100011101101001000010100001011000000001010111101000101101011011101011010101011111100011010100011101101001000010101111010001110101101010101111110010101010111010111101000101101011011101011010101011111100011011011101011010101011110101111010001110101101001011110100011101011010010111101000111010110100101111010001110101101001011110100011101011010010111101000111010110100101111010001110101101001011110100011101011010010101011100001011001000010101111010001011010110111010110101010111111000110101000111011010010000101011110100011011101011010101011111101011010101011111100101010101110101111010001011010110111010110101010111111000110101101001000010101111010001101110101101010101111110101101010101111110001110010101011100001011001000010101111010001011010110111010110101010111111000110101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Forment, septiembre 2012

Bioinformatics Core Services:

a bridge between biologists and software developers

MPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFMPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFMPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKCDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMMPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKCDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKCDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKCDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGTACATCGGGTCAAGCTAAGCGGAAAGAAAGCTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCAAAGCTAAGCGCTGCTAATCAAAGCTAAGATCGGGTGGGGGTCAAAGCAAAGCTAATCAAAGCTAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCGGAAAGAAAGCTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAGCTAATCGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCAAAGCTAAGCGCTGCTAATCAAAGCTAAGATCGGGTGGGGGTCAAAGCAAAGGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCAAAGCTAAGCGCTGCTAATCAAAGCTAAGATCGGGTGGGGGTCAAAGCAAAGCTAATCAAAGCTAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCGGAAAGAAAGCTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAAGCTAATCAAACGGGTGGGGGTTAAGATCGGGTGGGGGTCAAAGCTAAGCGGAAGCTAATCAAACGGGTGGGGGTCAAAGCTAAGCAAAGCTAAGCGCTGCTAATCAAAGCTAAGA10101101110101101010101111110001101011010010000101011110100011010001110110100100001010111101000111010110101010111111001010101011010000101000101010101110000101100100001010111101000101101011011101011010101011111100011010100011101101001000010101111010001101110101101010101111110101101010101111110010101010111010111101000101101011011101011010101011111100011010110100100001010111101000110111010110101010111111010110101010111111000111011010010000101000010110000000010101111010001011010110111010110101010111111000110101000111011010010000101011110100011101011010101011111100101010101110101111010001011010110111010110101010111111000110110111010110101010111101011110100011101011010010111101000111010110100101111010001110101101001011110100011101011010010111101000111010110100101111010001110101101001011110100011101011010010111101000111010110100101010111000010110010000101011110100010110101101110101101010101111110001101010001110110100100001010111101000110111010110101010111111010110101010111111001010101011101011110100010110101101110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Forment, septiembre 2012

Bioinformatics Core Services boom.








Bioinformatics Core Services mission.






Bioinformatics Core services provided.- computer infrastructure

- data management

- data analysis

- software development

- bioinformatics consultation

- bioinformatics training


Regular computer skills of experimental researchers.- Excel


Regular computer skills of experimental researchers.- BLAST


Regular computer skills of experimental researchers.- CLUSTAL


Regular computer skills of experimental researchers.- VectorNTI


Modern Biology requirements: hardware (I).experiments generating more than 1TB of raw sequencing data+temporary files+processed data+RAM memory-hungry software=BIG COMPUTERS NEEDED:Several TB hard-disk + 32 GB RAM


Modern Biology requirements: hardware (II).Very high processing time(days / weeks / months)

300,000,000 sequences + 1/10 second per sequence=300,000,000 / 10 / 60 / 60 / 24 = 347.22 daysVery high processing time(days / weeks / months)

Affordable solution: computing clusters

347.22 days / 50 computer nodes = 6.94 days

MPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHEFMGPSNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFMPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACDEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEEFMGPSVDYPNMKFGHMRSHGYPNMKFGHQRTACDEEFMGPSVDGIMDTACDEEFMGQRSGYPNMKFGHMTACEEFMGPSVDGSHGYPNMKFGHQRTIMGPSVDPQDEEFMGQRSGYPNMKFGHMRSHGYPNMKACDEDERSGYP

Technology

Bioinformatics core services, the IBMCP case