List of startup databases for MAExplorer

Select one of the startup databases below. Some of these are also listed in the table of contents on the left under List of Startup DBs (Databases). These startup databases are taken from the set of hybridizations.

First time users: You might try using the short tutorial with one of these startup databases.

After you click (only once!) on a selection, it will download the applet (about 300Kb) and start MAExplorer in your browser. Multiple clicks may cause some browsers to hang. When it is finished, the menu bar will become active and it will display Ready - click on a clone to query database.

List of public databases categories

  1. C57BL/6 Wildtype "Mammary Development"
  2. Stat5a K.O. "Mammary Development"
  3. bB-inhibin K.O. "Mammary Development"
  4. C/EBP-b K.O. "Mammary Development"
  5. C57BL/6 Development vs. Developmental Models
  6. Tumor Models
  7. Poly(A) vs. Total RNA
  8. Reproducibility
  9. Large sets of hybridizations
  10. OLD startup databases (will be deprecated)

Public databases - by category

1. C57BL/6 Wildtype "Mammary Development"

  1. All stages - This loads 6 hybridizations: 10 week virgin, Pregnancy day 13, Lactation day 1, Lactation day 3, Lactation day 10, and Involution day 4.
  2. Virgin vs. Pregnancy - This loads 2 hybridizations : 10 week Virgin and Pregnancy day 13.
  3. Pregnancy vs. Lactation - This loads 4 hybridizations: Pregnancy day 13, lactation day 1, lactation day 3, and Lactation day 10.
  4. Lactation vs. Involution - This loads 4 hybridizations: lactation day 1, Lactation day 3, Lactation day 10 and Involution day 4.

2. Stat5a K.O. "Mammary Development"

  1. Stat5a K.O. Pregnancy and Lactation - This loads 2 hybridizations of Stat5a null Pregnancy day 13 and Stat5a null Lactation day 1.
  2. Stat5a K.O. vs C57BL/6 Pregnancy and Lactation - This loads 4 hybridizations of C57BL/6 Pregnancy day 13, C57BL/6 Lactation day 1, Stat5a null Pregnancy day 13 and Stat5a null Lactation day 1.
  3. Stat5a K.O. vs. C57BL/6 Pregnancy - This loads 2 hybridization probes of C57BL/6 Pregnancy day 13 and Stat5a null Pregnancy day 13.
  4. Stat5a K.O. vs. C57BL/6 Lactation - This loads 2 hybridizations of C57BL/6 Lactation day 1 and Stat5a null Lactation day 1.

3. bB-inhibin K.O. "Mammary Development"

  1. bB-inhibin K.O. vs C57BL/6 Virgin and Lactation - This loads 5 hybridizations: C57BL/6 10 week virgin, C57BL/6 Lactation day 1, bB-inhibin K.O. virgin, bB-inhibin heterozygous virgin, bB-inhibin K.O. Lactation day 1
  2. bB-inhibin K.O. vs. C57BL/6 Virgin - This loads 3 hybridizations: C57BL/6 10 week virgin, bB-inhibin K.O. virgin, and bB-inhibin +/- K.O. virgin.

  3. bB-inhibin K.O. vs. C57BL/6 Lactation - This loads 2 hybridizations: C57BL/6 Lactation day 1and bB-inhibin K.O. Lactation day 1.

4. C/EBP-b K.O. "Mammary Development"

  1. C/EBP-bK.O. Virgin, Pregnancy and Lactation - This loads 4 hybridizations C/EBP-bK.O. virgin, C/EBP-bK.O. Pregnancy day 13, C/EBP-bK.O. Pregnancy day 16, C/EBP-bK.O. Lactation day 1.
  2. C/EBP-bK.O. vs. C57BL/6 Virgin, Pregnancy and Lactation - This loads 8 hybridizations: C57BL/6 10 week virgin, C57BL/6 Pregnancy day 13, C57BL/6 pregnancy day 16, C57BL/6 Lactation day 1, C/EBP-bK.O. virgin, C/EBP-bK.O. Pregnancy day 13, C/EBP-bK.O. Pregnancy day 16, C/EBP-bK.O. Lactation day 1.
  3. [TODO] C/EBP-b K.O. vs. C57BL/6 Virgin - This loads 2 hybridizations: C57BL/6 10 week virgin and C/EBP-bK.O. virgin.
  4. [TODO] C/EBP-bK.O. vs. C57BL/6 Pregnancy - This loads 4 hybridizations C57BL/6 Pregnancy day 13, C57BL/6 pregnancy day 16, C/EBP-bK.O. Pregnancy day 13, andC/EBP-bK.O. Pregnancy day 16.
  5. [TODO] C/EBP-bK.O. vs. C57BL/6 Lactation - This loads 8 hybridizations: C57BL/6 Lactation day 1 and C/EBP-bK.O. Lactation day 1.

5. C57BL/6 Development vs. Developmental Models

  1. C57BL/6 Development vs. Developmental Models, normalized by virgin - This loads 15 hybridizations: C57BL/6 10 week Virgin, Pregnancy day 13, Pregnancy day 16, Lactation day 1, lactation day 3, Lactation day 10, Involution day 4, Stat5a null Pregnancy day 13, Stat5a null Lactation day 1, C/EBP-bK.O. virgin, C/EBP-bK.O Pregnancy day 13, C/EBP-bK.O Pregnancy day 16, C/EBP-bK.O. Lactation day 1, bB-inhibin K.O. virgin, bB-inhibin K.O. Lactation day 1.
  2. C57BL/6 Development vs. Developmental Models, normalized by pregnancy - This loads 15 hybridizations: C57BL/6 10 week Virgin, Pregnancy day 13, Pregnancy day 16, Lactation day 1, lactation day 3, Lactation day 10, Involution day 4, Stat5a null Pregnancy day 13, Stat5a null Lactation day 1, C/EBP-bK.O. virgin, C/EBP-bK.O Pregnancy day 13, C/EBP-bK.O Pregnancy day 16, C/EBP-bK.O. Lactation day 1, bB-inhibin K.O. virgin, bB-inhibin K.O. Lactation day 1.

6. Tumor Models

  1. Tumor Models - This loads seven hybridization probes (HP): two tumor controls (4A, 4C), four transgenic (4B, 8A) and (HR1, HR2), and one WAP T-Ag tumor hybridization probes.

7. Poly(A) vs. Total RNA

  1. Poly(A) vs. Total RNA - This loads 2 hybridizations: C57BL/6 Pregnancy day 13 poly(A) and C57BL/6 Pregnancy day 13 Total RNA.

    8. Reproducibility

    1. C57BL/6 Lactation day 3 - This loads 4 hybridizations of C57BL/6 Lactation day 3 that were hybridized with the same probe, varying amounts of probe, exposed for different lengths of time on the phoshorimager, and loaded multiple times into the Pathways spot intensity quantification software.
    2. [TODO] C57BL/6 Lactation day 3 - This loads 12 hybridizations of C57BL/6 Lactation day 3 that were hybridized with the same probe, varying amounts of probe, exposed for different lengths of time on the phoshorimager, and loaded multiple times into the Pathways spot intentsity quantification software.

    9. Large sets of hybridizations

    1. Ordered set of 14 probes - virgin normalization - This loads a subset (14) of the database of hybridization probes (public and collaborator DB) - one of every probe organized so that they are grouped into types and within the type the stages/tumors are in order. The types include: C57B6, CEBP, Beta, Stat5a (-,-). Hierarchical clustering is normalized by C57B6 Virgin 10 weeks. The X and Y classes are C57B6 (virgin, pregnancy 13) vs CEBP-null (virgin, pregnancy).
    2. Ordered set of 14 probes - pregnancy normalization - This loads a subset (14) of the database of hybridization probes (public and collaborator DB) - one of every probe organized so that they are grouped into types and within the type the stages/tumors are in order. The types include: C57B6, CEBP, Beta, Stat5a (-,-). Hierarchical clustering is normalized by C57B6 Pregnancy 13 (1 hr). The X and Y classes are C57B6 (virgin, pregnancy 13) vs CEBP-null (virgin, pregnancy).
    3. LARGE public set of 31 probes - This loads 31 public hybridization probes.
    4. LARGE public set of 38 probes - This loads all 38 public hybridization probes including 7 transgenic tumor probes and controls.

    10. OLD startup databases (will be deprecated):

    1. Pregnancy vs. lactation - This loads four "Mammary development" hybridization probes: two pregnancy and two lactation. You may also run this demo in presentation mode with larger fonts and graphics.
    2. Preg C57B6 vs Stat5a - This loads 7 "Mammary development" hybridization probes: three each for C57B6 day 13, and four Stat5a (-,-) day 13.
    3. Lactation vs. stat5a day 1 vs day 3 - This loads five "Mammary development" hybridization probes: three C57B6 lactation day 1, one C57B6 lactation day 3, and one Stat5a (-,-) day 1.
    4. Virgin K.O.-control vs. K.O. - This loads four "Mammary development" hybridization probes: one BetaB Hemo knock-out control and one BetaB-Null knockout, one pregnancy and one lactation.
    5. Pregnancy vs Virgin - This loads five "Mammary development" hybridization probes: three each for C57B6 pregnancy day 13, two virgin BetaB (K.O.-control and K.O.).
    6. Lactation Day 1 vs Virgin BetaB - This loads five "Mammary development" hybridization probes: three C57B6 lactation day 1, two virgin BetaB (K.O.-control and K.O.).
    7. Involution vs Virgin - This loads six hybridization probes: one C57B6 involution day 4, two C57B6 virgin 10 weeks, two BetaB virgin, one CEBP-Null virgin 18 hrs.
    8. CEBP-null Pregnancy vs Virgin - This loads four "transplanted mammary gland" CEBP hybridization probes: two pregnancy, one virgin, one null.
    9. C57B6 vs Stat5a (-,-) - This loads nine "Mammary development" hybridization probes: three c57B6 lactation, three C57B6 pregnancy, and one C57B6 involution, two Stat5a(-,-) (one each pregnancy and lactation).
    10. C57B6 vs Stat5a-KO (-,-) - This loads four "Mammary development" hybridization probes: two C57B6 probes (L1 and P13) and two Stat5a-KO (-,-) probes (L1 and P13).
    11. C57B6 virgin vs pregnancy+lactation+involution - This loads four "Mammary development" hybridization probes: two C57B6 virgin, one pregnancy day 13, one lactation day 1 and one day 3, and one Involution day 4.

    If you are having problems, contact the MAExplorer Help DESK

    Revised: $Date: 2000/07/13 12:32:02 $