Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.7.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13888	0.681
27DAP/17DAP	1.28707	0.785
39DAP/27DAP	1.43522	0.504
41DAP/39DAP	0.89566	0.527
42DAP/41DAP	0.98961	1
43DAP/42DAP	1.03334	1
47DAP/43DAP	1.02696	1
52DAP/47DAP	0.86772	0.63
57DAP/52DAP	1.06041	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02349	1
17DAP/reference	1.19915	0.092
27DAP/reference	0.96004	0.484
39DAP/reference	1.00457	0.991
41DAP/reference	1.03785	0.714
42DAP/reference	0.84538	0.002
43DAP/reference	0.8761	0.056
47DAP/reference	0.83929	0.032
52DAP/reference	0.80318	0.034
57DAP/reference	0.78897	0.042

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06272	0.473
27DAP/17DAP	0.94638	0.821
39DAP/27DAP	0.92584	0.488
41DAP/39DAP	1.12143	0.674
42DAP/41DAP	1.14003	0.12
43DAP/42DAP	0.95674	0.503
47DAP/43DAP	1.01549	0.973
52DAP/47DAP	1.63428	0.234
57DAP/52DAP	1.60086	0.059
57DAP/7DAP	0.66343	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01988	1
17DAP/reference	0.86029	0.039
27DAP/reference	0.99937	0.748
39DAP/reference	0.76722	0.015
41DAP/reference	1.01263	1
42DAP/reference	0.89657	0.169
43DAP/reference	0.90408	0.305
47DAP/reference	0.85362	0.057
52DAP/reference	1.1184	0.02
57DAP/reference	0.9643	0.396

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02567	0.852
17DAP/reference	0.99934	0.766
27DAP/reference	0.85902	0.16
39DAP/reference	0.84527	0.06
41DAP/reference	0.81684	0.076
42DAP/reference	0.8121	0.012
43DAP/reference	0.83953	0.114
47DAP/reference	0.87869	0.014
52DAP/reference	0.90776	0.156
57DAP/reference	1.02809	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24949	0.185
17DAP/reference	1.06311	0.612
27DAP/reference	1.01318	1
39DAP/reference	0.94552	0.299
41DAP/reference	1.10062	0.754
42DAP/reference	0.95405	0.552
43DAP/reference	0.73349	0.036
47DAP/reference	0.82198	0.016
52DAP/reference	0.76291	0.141
57DAP/reference	0.87185	0.229

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12932	0.966
26DAP/20DAP	1.13674	1
34DAP/26DAP	1.73823	0.819
51DAP/34DAP	1.13149	0.84
52DAP/51DAP	2.17012	0.035
53DAP/52DAP	0.7242	0.062
55DAP/53DAP	1.33307	0.05
57DAP/55DAP	0.78581	0.375
62DAP/57DAP	2.44305	0.445
68DAP/62DAP	1.16782	0.767
68DAP/14DAP	0.51269	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.57284	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.68428	0.113
Mature Green Tomato/Ripe Tomato	0.91582	0.446
Immature Eggplant/Mature Eggplant	0.47945	0.125
Ripe Pepper/Ripe Tomato	7.25518	0.235
Mature Eggplant/Ripe Tomato	15.1935	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.28309
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.04124
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.03293	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.89611	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.04588	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90989	1
IL12-4/WTpooled	1.1451	0.52
IL1-4/WTpooled	0.90241
WT/WTpooled	1.00715	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	0.94153	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.8459	1
DC3000/delta hrp 6h	1.18745	1
DC3000/delta hrp 12h	0.99561	1
DC3000/delta hrp 24h	0.37895	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05063	0.355
DC3000 delta B/DC3000 delta AB	1.19393	0.284

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	0.95561	1
Var 0h	0.91628	0.933
Var 12h I row2-row1	0.74833	0.338
Var 12h NI row2-row1	1.01314	1
Var 36h I row2-row1	0.85103	1
Var 36h NI row2-row1	1.34055	0.482
Var 60h I row2-row1	0.84456	0.285
Var 60h NI row2-row1	1.09006	1
Time course 0hI-0hNI	0.97636	0.906
Time course 12hI-12hNI	0.97561	0.847
Time course 36hI-36hNI	0.95689	0.323
Time course 60hI-60hNI	0.323	0.006

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)	0.82965	0.289
transgenic ySAMdc/azygous control (breaker)	1.83641	0.248
transgenic ySAMdc/azygous control (red)	1.1859	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90658	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.96998	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	28.1084	0.083
Manapal/WT (break)	2.28318	0.123
Manapal/WT (red)	1.50665	0.413