G6_using_S4

Super-paramagnetic Clustering of 84 points in a 69 dimensional space.

Each point is a row.


Table of Contents

  • PCA
  • K Mutual Nearest Neighbors
  • Reordered Distance Matrix
  • Dendrogram with Stable Clusters
  • Reordered Data
  • A Dendrogram next to Reordered Data
  • Reordered Genes
  • Samples
  • Files for TreeView
  • Parameters for SPC

  • PCA of points

     

    K Mutual Nearest Neighbors (K=11)

     

    Reordered Distance Matrix

     

    Dendrogram with Stable clusters

     

    Reordered Data

     

    A Dendrogram next to Reordered Data

     

    Reordered Genes

    14 202503_s_atKIAA0101 Chr:15q22.1
    243 213007_atFLJ10719 Chr:15q25-q26
    366 222848_atFKSG14 Chr:5p15.2-q12.3
    474 228033_atE2F7 Chr:12q21.1
    552 218662_s_atHCAP-G Chr:4p16-p15
    653 218663_atHCAP-G Chr:4p16-p15
    758 219306_atKNSL7 Chr:3p21.32
    865 222740_atATAD2 Chr:8q24.13
    935 207828_s_atCENPF Chr:1q32-q41
    1050 218355_atKIF4A Chr:xq13.1
    1125 204641_atNEK2 Chr:1q32.2-q41
    1262 222039_atLOC146909 Chr:17q21.31
    1338 209172_s_atCENPF Chr:1q32-q41
    145 202580_x_atFOXM1 Chr:12p13
    1510 203358_s_atEZH2 Chr:7q35-q36
    167 202705_atCCNB2 Chr:15q21.3
    1748 218009_s_atPRC1 Chr:15q26.1
    183 201890_atRRM2 Chr:2p25-p24
    1936 208079_s_atSTK6 Chr:20q13.2-q13.3
    2075 228273_atFLJ11029 Chr:17q23.2
    2146 214710_s_atCCNB1 Chr:5q12
    2220 204170_s_atCKS2 Chr:9q22
    2323 204444_atKIF11 Chr:10q24.1
    2463 222077_s_atRACGAP1 Chr:12q13.12
    2577 228729_atCCNB1 Chr:5q12
    2679 229490_s_atIQGAP3 Chr:1q23.1
    2719 204162_atKNTC2 Chr:18p11.31
    289 203213_atCDC2 Chr:10q21.1
    2957 219148_atTOPK Chr:8p21.2
    3042 210559_s_atCDC2 Chr:10q21.1
    3116 204026_s_atZWINT Chr:10q21-q22
    3227 204825_atMELK Chr:9p13.1
    3340 209773_s_atRRM2 Chr:2p25-p24
    3411 203362_s_atMAD2L1 Chr:4q27
    3555 218875_s_atFBXO5 Chr:6q25-q26
    3659 219787_s_atECT2 Chr:3q26.1-q26.2
    3722 204244_s_atASK Chr:7q21.3
    3849 218039_atNUSAP1 Chr:15q14
    391 201291_s_atTOP2A Chr:17q21-q22
    402 201292_atTOP2A Chr:17q21-q22
    4114 203755_atBUB1B Chr:15q15
    4218 204146_atPIR51 Chr:12p13.2-p13.1
    4344 213226_atPMSCL1 Chr:4q27
    4468 223381_atCDCA1 Chr:1q23.2
    4571 226980_atXTP1 Chr:5q12.1
    466 202589_atTYMS Chr:18p11.32
    4751 218585_s_atRAMP Chr:1q32.1-q32.2
    4856 218883_s_atKLIP1 Chr:4q35.1
    4960 219918_s_atASPM Chr:1q31
    5082 236641_atKIF14 Chr:1pter-q31.3
    518 202870_s_atCDC20 Chr:1p34.1
    5212 203554_x_atPTTG1 Chr:5q35.1
    5354 218755_atKIF20A Chr:5q31
    5415 203764_atDLG7 Chr:14q22.2
    5541 210052_s_atTPX2 Chr:20q11.2
    5626 204822_atTTK Chr:6q13-q21
    5728 204962_s_atCENPA Chr:2p24-p21
    5839 209642_atBUB1 Chr:2q14
    5929 205046_atCENPE Chr:4q24-q25
    6080 230165_atSGOL2 Chr:2q33.2
    6134 207165_atHMMR Chr:5q33.2-qter
    6213 203560_atGGH Chr:8q12.2
    6321 204240_s_atSMC2L1 Chr:9q31.2
    6432 206102_atKIAA0186 Chr:20p11.21
    6570 225834_atMGC57827 ---
    6664 222680_s_atRAMP Chr:1q32.1-q32.2
    6784 242560_atFANCD2 Chr:3p26
    6883 238756_atLOC283431 Chr:12q23.3
    6917 204033_atTRIP13 Chr:5p15.33
    7030 205394_atCHEK1 Chr:11q24-q24
    7167 223229_atHSPC150 Chr:1q32.1
    7237 208808_s_atHMGB2 Chr:4q31
    7347 216237_s_atMCM5 Chr:22q13.1
    7476 228323_atAF15Q14 Chr:15q14
    7578 229305_atKLIP1 Chr:4q35.1
    7681 235425_atSGOL2 Chr:2q33.2
    7769 224428_s_atCDCA7 Chr:2q31
    7872 227249_atNDE1 Chr:16p13.11
    7945 213906_atMYBL1 Chr:8q22
    8024 204510_atCDC7 Chr:1p22
    8173 227350_at--- ---
    8233 206632_s_atAPOBEC3B Chr:22q13.1-q13.2
    8331 205967_atHIST1H4C Chr:6p21.3
    8461 220239_atKLHL7 Chr:7p15.3

    Samples Names

    12104.cel
    281317.cel
    3412.cel
    43106.cel
    5111430.cel
    653547.cel
    758574.cel
    86129.cel
    930269.cel
    10101399.cel
    116070.cel
    12151497R.cel
    1331274.cel
    1418157.cel
    1542356bis.cel
    16221854R.cel
    176694bis.cel
    186490.cel
    19121437.cel
    2071308.cel
    2123190.cel
    2232283.cel
    231100R.cel
    2440345.cel
    251615.cel
    266180.cel
    2736300.cel
    286593.cel
    2928246.cel
    3029254.cel
    3126236.cel
    3234288.cel
    3346428.cel
    3417155R.cel
    3543360.cel
    3656566.cel
    37131453.cel
    38201621.cel
    3933284.cel
    4038328.cel
    4191360.cel
    4241349.cel
    43211622R.cel
    4424218.cel
    4547444.cel
    4627242.cel
    4744390.cel
    4850506.cel
    4951527.cel
    5055563.cel
    5119159.cel
    523530.cel
    5369ge205.cel
    5448458.cel
    5554558.cel
    5639344.cel
    5749461.cel
    586283.cel
    5914147.cel
    6025222.cel
    6151284.cel
    6245396.cel
    635757.cel
    646797.cel
    6537323.cel
    665965R.cel
    676384.cel
    6868ge197.cel
    6952528bis.cel

    Files for TreeView

    Raw Data Gene Tree Array Tree Clustered Data


    Parameters for SPC

    K (nearest neighbors)11
    Min T0.000000
    Max T0.250000
    Delta T0.004000
    Cycles3000
    GrowthTRUE
    Stable delta T4
    Ignore dropout size3

    Created by SPC_HTML_REPORT on 12-Aug-2004 00:48:07