Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.76869	0.02
27DAP/17DAP	1.42803	0.511
39DAP/27DAP	1.45414	0.408
41DAP/39DAP	0.63112	0.058
42DAP/41DAP	2.05462	0.031
43DAP/42DAP	2.12256	0.159
47DAP/43DAP	2.15804	0.156
52DAP/47DAP	1.2764	0.541
57DAP/52DAP	1.59228	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.26478	0.014
17DAP/reference	0.30011	0.007
27DAP/reference	0.72965	0.286
39DAP/reference	0.60826	0.058
41DAP/reference	0.56327	0.085
42DAP/reference	1.02457	0.731
43DAP/reference	1.49533	0.678
47DAP/reference	1.07115	1
52DAP/reference	5.94082	0.43
57DAP/reference	0.85517

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37246	0.088
27DAP/17DAP	1.07874	0.932
39DAP/27DAP	0.93949	0.648
41DAP/39DAP	1.26632	0.959
42DAP/41DAP	2.01506	0.081
43DAP/42DAP	1.25889	0.273
47DAP/43DAP	1.22331	0.262
52DAP/47DAP	1.8121	0.106
57DAP/52DAP	1.40511	0.244
57DAP/7DAP	6.0322	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72082	0.108
17DAP/reference	0.78943	0.019
27DAP/reference	0.67531	0.03
39DAP/reference	0.75215	0.023
41DAP/reference	0.58127	0.01
42DAP/reference	0.71748	0.024
43DAP/reference	0.89206	0.183
47DAP/reference	1.0101	1
52DAP/reference	0.60655	0.014
57DAP/reference	0.64257	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.42174	0.014
17DAP/reference	0.57631	0.018
27DAP/reference	0.88405
39DAP/reference	0.66447	0.053
41DAP/reference	0.37055	0.01
42DAP/reference	0.65878
43DAP/reference	0.2656	0.002
47DAP/reference	0.46954	0.007
52DAP/reference	0.24493	0.003
57DAP/reference	0.25372	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.5879	0.025
17DAP/reference	0.68719	0.078
27DAP/reference	0.57206	0.025
39DAP/reference	1.03777	0.691
41DAP/reference	0.73567	0.024
42DAP/reference	1.12741	0.433
43DAP/reference	1.57174	0.044
47DAP/reference	4.8902	0.005
52DAP/reference	5.05363	0.027
57DAP/reference	9.67526	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.35969	0.966
26DAP/20DAP	0.94334	1
34DAP/26DAP	1.02912	0.972
51DAP/34DAP	3.64919	0.036
52DAP/51DAP	1.13563	0.915
53DAP/52DAP	0.97372	0.83
55DAP/53DAP	0.62096	0.181
57DAP/55DAP	1.09175	0.935
62DAP/57DAP	3.11755	0.005
68DAP/62DAP	1.07929	0.834
68DAP/14DAP	2.25727	0.059

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	15.2129	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.2219	0.062
Mature Green Tomato/Ripe Tomato	0.05843
Immature Eggplant/Mature Eggplant	1.62053	0.052
Ripe Pepper/Ripe Tomato	0.15507	0.224
Mature Eggplant/Ripe Tomato	0.06108	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.59962	0.443
1-1-2/M82	1.23288	1
12-2/M82	1.0036	1
12-4/M82	1.25742	1
1-3/M82	2.23747	0.248
2-1-1/M82	0.91685	0.465
2-1/M82	1.13194	1
2-6/M82	1.11801	0.505
3-2/M82	1.05246	0.84
4-1-1/M82	1.13784	1
4-1/M82	2.24923	0.853
4-3-2/M82	1.44912	0.241
4-3/M82	0.9559	0.72
5-3/M82	0.9122	1
6-2/M82	0.48861	0.497
6-3/M82	1.14216	1
7-1/M82	1.01077	1
7-2/M82	1.27243	0.385
9-3-2/M82	1.4965

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.08794
IL7-3/WTpooled	2.02793
IL12-4/WTpooled	1.88978	0.516
IL1-4/WTpooled	1.01557	1
WT/WTpooled	0.86577	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	1.90081	0.154

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94124	1
DC3000/delta hrp 6h	1.10668	1
DC3000/delta hrp 12h	1.24715	1
DC3000/delta hrp 24h	1.07761	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	9.8501
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94834	1
Exp 36h	1.57782	0.693
Exp 60h	1.01611	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9574	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.7548	0.418
Var 12h NI row2-row1	2.57443	0.649
Var 36h I row2-row1	1.13121	1
Var 36h NI row2-row1	0.8133	0.61
Var 60h I row2-row1	0.73738	0.439
Var 60h NI row2-row1	0.5597	0.408
Time course 0hI-0hNI	1.20118	0.603
Time course 12hI-12hNI	1.86051	0.031
Time course 36hI-36hNI	4.9297	0.004
Time course 60hI-60hNI	19.1461	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)	1.051	0.748
transgenic ySAMdc/azygous control (breaker)	1.29909	0.248
transgenic ySAMdc/azygous control (red)	1.25795	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87584	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.66578	0.093
Manapal/WT (break)	0.97839	1
Manapal/WT (red)	0.34563	0.181