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COGENE: the Craniofacial and Oral Gene Expression Network
Affymetrix Chip Analyses

Affymetrix U95A DNA Chip Data, with about 12,000 known genes

The following data links are to large data files of about 2 Mb.

  1. Poster: Gene expression profiles of human craniofacial development.

  2. U95A hybridized to day 26 embryo cRNA; original and sorted by level (avg. diff)

  3. Comparison table of U95A hybridized to cRNA from 4 stages:
    4th week 1st pharyngeal arch, 5th week 1st pharyngeal arch, 6th week mandible, and 6th week maxilla.

  4. Comparison table of U95A hybridized to cRNA from 3 stages:
    4th week 2nd pharyngeal arch, 4th week frontal nasal prominence, 5th week frontal nasal prominence.

  5. Individual Experiment Data.
    The table links are to tab-delimited text files for Affymetrix U96A or U95Av2 chips.
    Descriptions for the probes are here. ND = not done.

    Expt. Tissue in EmbryogenesisExpt.1 Expt.2Expt.3Expt.4
    26 day whole embryo 462 D26 2038 Embryo 3161 4wk ND
    4th week 1st pharyngeal arch 615 4EPA1 2035 4EPA1 ND ND
    4th week 2nd pharyngeal arch 964 4EPA2 2027 4EPA2 ND ND
    4 week 3rd (& 4th) pharyngeal arch 1386 4EPA3 2036 4EPA3 ND ND
    4th week anterior rhombomeres (r1-r4) 1378 4EAR 2037 4EAR ND ND
    4th week posterior rhombomeres (r5-r8) 1626 4EPR 2028 4EPR 2315 4EPR 3162 4EPR
    4th week frontal nasal prominence 965 4EFNP 2029 4EFNP 3163 4EFNP 4764 4EFNP
    5th week 1st pharyngeal arch 617 5EPA 2030 5EPA1 ND ND
    5th week 2nd pharyngeal arch 1388 5EPA2 2316 5EPA2 ND ND
    5th week 3rd (& 4th) pharyngeal arch 1389 5EPA3 2020 5EPA3&4 2317 5EPA3 ND
    5th week anterior rhombomeres (r1-r4) 1627 5EAR 2318 5EAR 3164 5EAR ND
    5th week posterior rhombomeres (r5-r8) 1387 5EPR 2021 5EPR ND ND
    5th week frontal nasal prominence 966 5EFNP 2031 5EFNP ND ND
    6th week lateral nasal prominence 1628 6ELNP 2034 6ELNP ND ND
    6th week mandible 616 6EMAN 2022 6EMAN ND ND
    6th week maxilla 618 6EMAX 1379 6EMAX 2032 6EMAX 3165 6EMAX
    6th week medial nasal prominence 1390 6EMNP 2033 6EMNP ND ND
    8.5 week anterior tongue 1392 8.5EAT 2023 8.5EAT ND ND
    8.5 week posterior tongue 1391 8.5EPT 2024 8.5EPT 2319 8.5EPT ND
    8.5 week salivary gland 1393 8.5ESG 2026 8.5ESG 3166 8.5ESG ND
    8.5 week mandible 1394 8.5EMAN 2025 8.5EMAN ND ND
    8.5 week dental lamina 3381 8.5EDL 3767 8.5EDL ND ND
    8.5 week palatal shelves 3380 8.5EPS 3770 8.5EPS ND ND
    8.5 week upper lip 3768 8.5EUL 3769 8.5EUL ND ND
    8.5 week lower lip 4300 8.5ELL 4301 8.5ELL ND ND

  6. More to come later!

FTP data files for expts. 462 - 2319; includes files with the probe descriptions.



Last updated Apr. 15, 2003