Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.11.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2653	0.414
27DAP/17DAP	1.06518	0.902
39DAP/27DAP	0.99435	0.798
41DAP/39DAP	0.91585	0.632
42DAP/41DAP	0.90116	1
43DAP/42DAP	1.11163	0.861
47DAP/43DAP	1.0279	0.965
52DAP/47DAP	1.42611	0.31
57DAP/52DAP	0.9771	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02927	1
17DAP/reference	1.12453	0.053
27DAP/reference	0.98782	0.725
39DAP/reference	1.00759	1
41DAP/reference	0.93315	0.341
42DAP/reference	0.90699	0.069
43DAP/reference	0.98286	0.745
47DAP/reference	0.97855	0.445
52DAP/reference	0.9439	0.3
57DAP/reference	0.92625	0.294

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18166	0.075
27DAP/17DAP	1.11308	0.74
39DAP/27DAP	0.91711	0.639
41DAP/39DAP	1.18556	0.056
42DAP/41DAP	1.18126	0.365
43DAP/42DAP	0.91376	0.093
47DAP/43DAP	1.16424	0.492
52DAP/47DAP	1.0686	0.826
57DAP/52DAP	1.51153	0.056
57DAP/7DAP	0.93545	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22941	0.041
17DAP/reference	1.12807	0.18
27DAP/reference	1.08623	0.041
39DAP/reference	0.89486	0.146
41DAP/reference	1.00768	0.677
42DAP/reference	0.92155	0.222
43DAP/reference	1.02881	0.873
47DAP/reference	1.2197	0.038
52DAP/reference	1.16181	0.247
57DAP/reference	1.01196	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02814	0.874
17DAP/reference	1.12263	0.203
27DAP/reference	1.127	0.359
39DAP/reference	1.00672	0.682
41DAP/reference	1.01459	1
42DAP/reference	1.03722	0.951
43DAP/reference	1.0598	0.809
47DAP/reference	1.06781	0.482
52DAP/reference	0.81708	0.007
57DAP/reference	1.19907	0.018

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00668	1
17DAP/reference	1.11719	0.518
27DAP/reference	1.03392	0.447
39DAP/reference	1.02941	0.691
41DAP/reference	0.90924	0.167
42DAP/reference	0.97277	0.671
43DAP/reference	0.88416	0.158
47DAP/reference	0.9508	0.409
52DAP/reference	1.27177	0.15
57DAP/reference	1.08512	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13434	0.966
26DAP/20DAP	1.24948	0.305
34DAP/26DAP	0.97289	0.92
51DAP/34DAP	1.89745	0.033
52DAP/51DAP	0.90884	1
53DAP/52DAP	1.94735	0.031
55DAP/53DAP	0.72599	0.072
57DAP/55DAP	0.9012	0.577
62DAP/57DAP	0.60555	0.005
68DAP/62DAP	1.376	0.866
68DAP/14DAP	0.79605	1

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92913	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.65891	0.058
Mature Green Tomato/Ripe Tomato	0.62722	0.107
Immature Eggplant/Mature Eggplant	0.67389	0.066
Ripe Pepper/Ripe Tomato	0.48069	0.224
Mature Eggplant/Ripe Tomato	0.80968	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.911	0.944
1-1-2/M82	1.16677	1
12-2/M82	0.94133	0.955
12-4/M82	1.00608	1
1-3/M82	1.15117	1
2-1-1/M82	1.06444	1
2-1/M82	1.17707
2-6/M82	0.92146	1
3-2/M82	0.90174
4-1-1/M82	1.04834	1
4-1/M82	1.3802	0.853
4-3-2/M82	1.02245	1
4-3/M82	1.19344	1
5-3/M82	0.98839	1
6-2/M82	1.28383
6-3/M82	1.11695	1
7-1/M82	1.14736	1
7-2/M82	0.91723	0.881
9-3-2/M82	1.05916	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.14814	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01426	1
IL12-4/WTpooled	0.76182	0.484
IL1-4/WTpooled	0.8507	0.834
WT/WTpooled	0.89146	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.86683	0.975

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00579	1
DC3000/delta hrp 6h	0.90367	0.95
DC3000/delta hrp 12h	0.90198	1
DC3000/delta hrp 24h	0.97449	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28778	0.29
DC3000 delta B/DC3000 delta AB	1.0776	0.694

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02111	1
Exp 36h	1.06867	1
Exp 60h	1.23194	0.563

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.06116	1
Var 0h	0.83055	0.933
Var 12h I row2-row1	1.05149	0.795
Var 12h NI row2-row1	1.12751	1
Var 36h I row2-row1	1.11991	1
Var 36h NI row2-row1	0.85398	0.382
Var 60h I row2-row1	0.72498	0.439
Var 60h NI row2-row1	0.89562	0.458
Time course 0hI-0hNI	1.04535	1
Time course 12hI-12hNI	1.03349	0.82
Time course 36hI-36hNI	1.35525	0.007
Time course 60hI-60hNI	2.28779	0.008

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.08907	0.297
transgenic ySAMdc/azygous control (breaker)	1.21042	0.248
transgenic ySAMdc/azygous control (red)	1.06444	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94855	0.064

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66985	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8841	1
Manapal/WT (break)	0.60368	0.285
Manapal/WT (red)	0.56559	0.181