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104901Supplementary_Table_SV_Menges_et_al

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104901Supplementary_Table_SV_Menges_et_al Powered By Docstoc
					Table SV
Results after MPSS gene expression analysis using various rice tissues or various treatments were downloaded from the rice MPSS database (http://mpss.udel.edu/rice/; Nakano et al., 2006). The numbers in column D-Q provide the occurrence of found signatures normalized to 1 million beads.


Code   Title (description)                                                                                                             #signatures CYCD1;1 CYCD1;2 CYCD1;3 CYCD2;1 CYCD2;2 CYCD2;3 CYCD3;1 CYCD4;1 CYCD4;2 CYCD5;1 CYCD5;2 CYCD5;3 CYCD6;1 CYCD7;1
9LA    93-11 - 60 Days Mature Leaves                                                                                                     1,235,049        0       0       0       0       0       0       0       0       0       0       0       0       0        0
9LB    93-11 - 60 Days Mature Leaves - Biological Replicate                                                                                802,077        0       0       0      23       0       0       0       0       0       0       5       0      49        0
9LC    93-11 - 60 Days Mature Leaves                                                                                                       875,786        0       0      20       0       0       0       0       0       0       0       0       0       0        0
9LD    93-11 - 60 Days Mature Leaves - Biological Replicate                                                                                848,298        0       0       0       0       0       0       0       0       0       0       0       0       0        0
9ME    9311 - 60 Days Meristematic Tissue                                                                                                1,495,639        0       0       0      20       0       0       0       5       4       0       0       1      51        0
9RO    9311-60 Days Mature Roots                                                                                                         1,593,078        0       0       0       6       0       0       0      58       0      23       0       0       0        0
9RR    9311-60 Days Mature Roots - Biological Replicate                                                                                  1,594,323        0       0       0       2       0       0       0       0       0       0       0       0       0        0
FLA    F1 Hybrid 60days Mature Leaf Replicate A                                                                                            855,097        0       0       0       0       0       0       0       0       0       0       0       0       0        0
FLB    F1 Hybrid 60days Mature Leaf Replicate B                                                                                            777,927        0       0       0       0       0       0       0       0       0       0       0       5       0        0
FLC    F1 Hybrid 60days Mature Leaf Replicate C                                                                                            802,877        0       0       0       0       0       0       0       0       0       0       0       2       0        0
FLD    F1 Hybrid 60days Mature Leaf Replicate D                                                                                          1,158,992        0       0       0       0       0       0      29       0      10       0       0       7       0        0
FME    F1 Hybrid 60days Meristematic tissue                                                                                              2,226,486        0       0       0       4       0       0      54      11      25       0       0       0      12        0
FRO    F1 Hybrid 60days Mature Root                                                                                                      1,902,752        0       0       0       0       0       0      37       0       0       2       0       0      47        0
FRR    F1 Hybrid 60days Mature Root Biological Replicate                                                                                 1,708,041        0       0       0       0       0       0      41       0       0       0       0       0       6        0
NCA    Nipponbare 35 days - Callus                                                                                                       1,523,370        0       0       0       9       0       0     116     165      55       0       0      22      42        0
NGD    Nipponbare 10 days - Germinating seedlings grown in dark                                                                          1,963,932        0       0       0       0       0       0       0       0       0       0       0      11       0        0
NGS    Nipponbare 3 days - Germinating seed                                                                                              1,271,334        0       0       0     136       0       0       0      11      11      68       0       0       0        0
NIP    Nipponbare 90 days - Immature panicle                                                                                             2,042,459        0       0      77      41       0       0       0       1       1      18       0       4       0        0
NLA    Nipponbare 60 days - Mature Leaves - Replicate A                                                                                    774,721        0       0       0       0       0       0       0       0       0       0       0       0      51        0
NLB    Nipponbare 60 days - Mature Leaves - Replicate B                                                                                  1,001,565        0       0       0       0       0       0      27       0       0       0       0      68      31        0
NLC    Nipponbare 60 days - Mature Leaves - Replicate C                                                                                    958,846        0       0       0       0       0       0      92       0      12       0       0      38       0        0
NLD    Nipponbare 60 days - Mature Leaves - Replicate D                                                                                    944,407        0       0       0       0       0       0       0       0       0       0       0       8       4        0
NME    Nipponbare 60 days - Crown vegetative meristematic tissue                                                                         2,018,455        2       0       0      28       0       0      54      70       7       0       0       8       0        0
NOS    Nipponbare Ovary and mature stigma                                                                                                1,922,660        0       0       0      24       0       0      24      16      36      23      16     211      22        0
NPO    Nipponbare Mature Pollen                                                                                                          1,836,178        0       0       0       1       0       0       2       0       0       0       0       0       0        0
NRA    Nipponbare 60 days - Mature Roots - Replicate A                                                                                   1,925,649        0       0       0       0       0       0       0       0       2      23       0       0       0        0
NRB    Nipponbare 60 days - Mature Roots - Replicate B                                                                                   1,955,815        0       0       1       0       0       0       0       0       0       0       2       0       0        0
NST    Nipponbare 60 days - Stem                                                                                                         1,438,617        0       0       0     254       0       0       0      61      23       0       0       0     137        0
NYL    Nipponbare 14 days - Young leaves                                                                                                 1,675,313        0       0       2      10       0       0       0       0       0       0       0       0       0        0
NYR    Nipponbare 14 days - Young Roots                                                                                                  1,330,133        0       0       0      85       0       0       0      18       0       0       0       0       0        0
NCL    Nipponbare 14 days - Young leaves stressed in 4C cold for 24h                                                                     1,720,104        0       0       0       0       0       0       0       0       0       0       0      13       0        0
NCR    Nipponbare 14 days - Young roots stressed in 4C cold for 24h                                                                      1,824,875        0       0       0       0       0       0       0       0       0       0       0       0      34        0
NDL    Nipponbare 14 days - Young leaves stressed in drought for 5 days                                                                  1,926,066        0       0       0       7       0       0       0       0       0       0      12       0       1        0
NDR    Nipponbare 14 days - Young roots stressed in drought for 5 days                                                                   1,580,846        0       0       0      38       0       0     121      36      16       0       0       0       0        0
NSL    Nipponbare 14 days - Young leaves stressed in 250 mM NaCl for 24h                                                                 1,973,678        0       0       0       0       0       0       0       5       0       0       2       3       0        0
NSR    Nipponbare 14 days - Young roots stressed in 250 mM NaCl for 24h                                                                  1,281,591        0       0       8       2       0       0       0       3       0       5       0       7       0        0
MC00   Mock treatment-0hr (infected)                                                                                                     1,112,770        0       0       0      68       0       0       0       0       0       0      31      72      25        0
MC24   Mock treatment-24hr (infected)                                                                                                    1,167,682        0       0       0       0       0       0       0       0       0       0       4      11       0        0
MR03   M. grisea-R-3hr (infected)                                                                                                        1,167,077        0       0       0       0       0       0       0       0       0       0       0       2       0        0
MR06   M. grisea-R-6hr (infected)                                                                                                          834,384        0       0       0       0       0       0       0       0       0       0       2      16       0        0
MR12   M. grisea-R-12hr (infected)                                                                                                         995,468        0       0       0       0       0       0       0       0       0       0       5      46       0        0
MR24   M. grisea-R-24hr (infected)                                                                                                       1,063,532        0       0       0       0       0       0       0       8       0       0       5      23       0        0
MR48   M. grisea-R-48hr (infected)                                                                                                       1,136,745        0       0       4       0       0       0       0       0       0       0      14      22      26        0
MS03   M. grisea-S-3hr (infected)                                                                                                        1,289,755        0       0       3       5       0       0       0       0       0       0       0      51       0        0
MS06   M. grisea-S-6hr (infected)                                                                                                          826,456        0       0       0       0       0       0       0       0       0       6       0     131       0        0
MS12   M. grisea-S-12hr (infected)                                                                                                         812,566        0       0       0       0       0       0       0       0       0       0       0       8       0        0
MS24   M. grisea-S-24hr (infected)                                                                                                         812,221        0       0       0       0       0       0       5       5       0       0       7       0       0        0
MS48   M. grisea-S-48hr (infected)                                                                                                       1,176,137        0       0       0       0       0       0       0       0       0       0       0      58       8        0
MS96   M. grisea-S-96hr (infected)                                                                                                         809,692        0       0       0       0       0       0       0       0       0       0       0       0       0        0
PLA    rice leaf, beet armyworm damaged, 24 hr(99-1726)                                                                                    927,594        0       0       0       0       0       0       0       0       0       0       0       0       0        0
PLC    rice leaf, mechanical damaged, 24 hr                                                                                                980,722        4       0       9       0       0       0       2       0       0       0       0       0       0        0
PLW    rice leaf, water weevil damaged, 24 hr                                                                                              799,900        0       0       0       0       0       0       0       0       0       0       0       0       0        0
PSC    rice developing seeds, 6 days old cypress high milling(99-1710)                                                                   1,046,055        0       0       0      99       0       0       0       0       0       0       0       7       0        0
PSI    rice developing seeds,6 days old, Ilpumbyeo - High Taste                                                                            991,832        0       0       0      23       0       0       0       0       0       0       0       9       0        0
PSL    rice developing seeds, 6 days old, LaGrue-Low Milling                                                                               885,188        0       0       0     155       0       0      11       0       0       0       0       4       0        0
PSN    rice developing seed, 6 days old, Nipponbare-Grain quality control                                                                  969,922        0       0       0      22       0       5       0       0       0       0       0      20       0        0
PSY    rice developing seeds,6 days old, YR15965Acp33 - Low Taste                                                                          970,285        0       0       0       0       0       0      46       0       0       0       0       7       0        0
XC00   Leaves collected from 2 months old untreated Control-Nipponbare-Xa21 at 0hr                                                         902,921        0       0       0       0       0       0       0       0       0       0       0       0       0        0
XC06   Leaves collected from 2 months old Nipponbare Xa21 plants 6hr after wound treatment (mock)                                        1,051,340        0       0       0       0       0       0       0       4       0       0       0       0     164        0
XC24   Leaves collected from 2 months old Nipponbare Xa21 plants 24hr after wound treatment (mock)                                         914,150        0       0       0       0       0       0       0       0       0       0      10       0       0        0
XR03   Leaves collected from 2 months old Nipponbare Xa21 plants 3hr after Xanthamonas Oryzae inoculation                                  874,545        0       0       0       0       0       0      31       0       0       0       0       0       0        0
XR06   Leaves collected from 2 months old Nipponbare Xa21 plants 6hr after Xanthamonas Oryzae inoculation showing resistance reaction      962,174        0       0       0       0       0       0       0       0       0       0      10       0       0        0
XR12   Leaves collected from 2 months old Nipponbare Xa21 plants 12hr after Xanthamonas Oryzae inoculation showing resistance reaction 1,263,925          0       0       0       0       0       0       0       0       0       0       0       0       0        0
XR24   Leaves collected from 2 months old Nipponbare Xa21 plants 24hr after Xanthomonas oryzae inoculation showing resistance reaction     826,749        0       0       0       0       0       0       0       0       0       0       0      49      82        0
XR48   Leaves collected from 2 months old Nipponbare Xa21 plants 48hr after Xanthomonas oryzae inoculation showing resistance reaction   1,022,364        0       0       0       0       0       0       0       0       0       0       0       0      80        0
XS03   Leaves collected from 2 months old Nipponbare Xa21 plants 3hr after Xanthamonas Oryzae inoculation showing susceptible reaction 1,162,447          0       0       0       0       0       0       0       0       0       0       0       0       0        0
XS06   Leaves collected from 2 months old Nipponbare Xa21 plants 6hr after Xanthamonas Oryzae inoculation showing susceptible reaction 1,113,297          0       0       0       0       0       0       5       0       0       0       0       0     109        0
XS12   Leaves collected from 2 months old Nipponbare Xa21 plants 12hr after Xanthomonas oryzae inoculation showing susceptible reaction 1,177,043         0       0       0       0       0       0       0       0       0       0       0      39       0        0
XS24   Leaves collected from 2 months old Nipponbare Xa21 plants 24hr after Xanthomonas oryzae inoculation showing susceptible reaction 1,017,047         0       0       0       0       0       0       0       0       0       0      15       2       0        0
XS48   Leaves collected from 2 months old Nipponbare Xa21 plants 48hr after Xanthomonas oryzae inoculation showing susceptible reaction    912,629        0       0      19       0       0       0       0       0       0       0       0       4      48        0

				
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