Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.11.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00183	0.919
27DAP/17DAP	1.06076	0.881
39DAP/27DAP	0.84524	0.507
41DAP/39DAP	1.45712	0.37
42DAP/41DAP	1.03155	1
43DAP/42DAP	0.9102	0.801
47DAP/43DAP	0.94122	0.788
52DAP/47DAP	1.48541	0.307
57DAP/52DAP	0.94604	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04875	0.685
17DAP/reference	1.02804	0.764
27DAP/reference	1.08036	0.435
39DAP/reference	1.20197
41DAP/reference	1.05021	0.855
42DAP/reference	0.96163	0.233
43DAP/reference	1.08586	0.36
47DAP/reference	0.84097	0.083
52DAP/reference	0.80981	0.071
57DAP/reference	0.85652	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93175	0.454
27DAP/17DAP	1.17051
39DAP/27DAP	1.3088	0.073
41DAP/39DAP	1.09097	0.817
42DAP/41DAP	1.04426	0.783
43DAP/42DAP	1.03194	0.513
47DAP/43DAP	0.97625	0.857
52DAP/47DAP	1.00733	1
57DAP/52DAP	1.06791	0.594
57DAP/7DAP	1.0074	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93775
17DAP/reference	0.88182	0.012
27DAP/reference	0.863	0.01
39DAP/reference	0.93562	0.17
41DAP/reference	0.9106	0.011
42DAP/reference	0.92227	0.035
43DAP/reference	0.89445	0.037
47DAP/reference	0.81397	0.101
52DAP/reference	0.80913	0.028
57DAP/reference	0.95782	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00426	1
17DAP/reference	1.03473	0.773
27DAP/reference	0.93407	0.352
39DAP/reference	0.8674	0.122
41DAP/reference	0.90443	0.127
42DAP/reference	0.9461	0.261
43DAP/reference	1.02875	0.845
47DAP/reference	1.06861	0.589
52DAP/reference	0.92811	0.203
57DAP/reference	1.01926	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85527	0.071
17DAP/reference	0.96672	0.55
27DAP/reference	0.89036	0.033
39DAP/reference	0.90164	0.043
41DAP/reference	0.8888	0.043
42DAP/reference	0.78951	0.025
43DAP/reference	0.84331	0.037
47DAP/reference	0.97649	0.478
52DAP/reference	0.8616	0.167
57DAP/reference	0.61818	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02618	0.966
26DAP/20DAP	0.95955	1
34DAP/26DAP	1.01716	1
51DAP/34DAP	1.02519	0.869
52DAP/51DAP	0.96752	1
53DAP/52DAP	0.85536
55DAP/53DAP	1.45157	0.382
57DAP/55DAP	0.97647	0.839
62DAP/57DAP	1.08595	0.833
68DAP/62DAP	1.22423	0.707
68DAP/14DAP	1.08952	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01769	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.94319	0.569
Immature Eggplant/Mature Eggplant	1.1199	0.278
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.48088	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06699	1
1-1-2/M82	0.96431	1
12-2/M82	0.97254	0.955
12-4/M82	0.95814	1
1-3/M82	0.88647	0.378
2-1-1/M82	1.07804	0.764
2-1/M82	1.19917	0.188
2-6/M82	1.08128	0.695
3-2/M82	0.94971
4-1-1/M82	0.97842	1
4-1/M82	0.74089	1
4-3-2/M82	0.87156	0.487
4-3/M82	0.96389	1
5-3/M82	1.00889	1
6-2/M82	1.03826	1
6-3/M82	1.00536	1
7-1/M82	1.08568	0.598
7-2/M82	0.99933	1
9-3-2/M82	0.79821	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.92528
IL2-6/WTpooled	1.10543	1
IL7-5/WTpooled	0.76878
IL7-3/WTpooled	0.93468
IL12-4/WTpooled	0.96328	1
IL1-4/WTpooled	1.28174	1
WT/WTpooled	1.07677	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	1.93495	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93748	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.98706	1
DC3000/delta hrp 24h	1.07331	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15748	0.25
DC3000 delta B/DC3000 delta AB	1.03755	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13206	1
Exp 36h	1.71655	0.349
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96763	1
Var 0h	1.28905	0.936
Var 12h I row2-row1	1.11254	0.254
Var 12h NI row2-row1	1.02878	1
Var 36h I row2-row1	0.97563	1
Var 36h NI row2-row1	0.95221	0.743
Var 60h I row2-row1	1.19468	1
Var 60h NI row2-row1	1.15381	0.904
Time course 0hI-0hNI	1.08224	0.833
Time course 12hI-12hNI	1.1072	0.301
Time course 36hI-36hNI	1.05837	0.19
Time course 60hI-60hNI	1.53896	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)	1.53613	1
transgenic ySAMdc/azygous control (breaker)	1.08493	1
transgenic ySAMdc/azygous control (red)	1.27992	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99265	0.609

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05497	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.77189	0.333
Manapal/WT (red)	0.87274	0.36