Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20885	0.709
27DAP/17DAP	1.57876	0.437
39DAP/27DAP	1.35423	0.927
41DAP/39DAP	0.98107	0.879
42DAP/41DAP	1.05652	0.945
43DAP/42DAP	1.60752	0.348
47DAP/43DAP	0.55124	0.062
52DAP/47DAP	1.14542	0.798
57DAP/52DAP	1.16071	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98128	0.578
17DAP/reference	0.98848	0.777
27DAP/reference	1.05294	0.487
39DAP/reference	1.16663	0.149
41DAP/reference	1.25572	0.085
42DAP/reference	1.68383	0.001
43DAP/reference	1.0258	0.678
47DAP/reference	1.24457	0.013
52DAP/reference	1.61301	0.041
57DAP/reference	1.59309	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.40443
27DAP/17DAP	1.43203	0.186
39DAP/27DAP	1.25654	0.643
41DAP/39DAP	0.93956	0.893
42DAP/41DAP	1.16822	0.446
43DAP/42DAP	1.71922	0.273
47DAP/43DAP	1.04272	1
52DAP/47DAP	0.94332	0.886
57DAP/52DAP	0.90372	0.641
57DAP/7DAP	1.50776

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7523	0.1
17DAP/reference	0.85985	0.044
27DAP/reference	1.15552	0.088
39DAP/reference	0.89045	0.064
41DAP/reference	1.10961	0.445
42DAP/reference	1.06309	0.308
43DAP/reference	0.97948	0.48
47DAP/reference	1.13698	0.089
52DAP/reference	1.01005	0.74
57DAP/reference	0.93925	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01031	0.93
17DAP/reference	1.23523	0.191
27DAP/reference	1.44982	0.042
39DAP/reference	1.25568	0.155
41DAP/reference	1.38557	0.053
42DAP/reference	1.38509	0.012
43DAP/reference	1.6242	0.017
47DAP/reference	1.31089	0.011
52DAP/reference	1.13893	0.208
57DAP/reference	1.20144	0.626

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87309	0.169
17DAP/reference	1.1696	0.45
27DAP/reference	1.11315	0.392
39DAP/reference	1.19765	0.296
41DAP/reference	1.38514	0.276
42DAP/reference	1.26758	0.279
43DAP/reference	1.15593	0.755
47DAP/reference	1.21109	0.015
52DAP/reference	0.99733	0.763
57DAP/reference	1.83657	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.25453	0.631
26DAP/20DAP	0.68359
34DAP/26DAP	0.65057	0.374
51DAP/34DAP	1.31137	0.829
52DAP/51DAP	1.5451	0.86
53DAP/52DAP	0.71989	0.066
55DAP/53DAP	1.64503	0.653
57DAP/55DAP	0.91704	0.823
62DAP/57DAP	0.9624	0.994
68DAP/62DAP	1.28355	0.945
68DAP/14DAP	0.90354	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.37457

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.90469	0.064
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.11357	1
Mature Eggplant/Ripe Tomato	0.0049

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15751	0.591
1-1-2/M82	N/A	N/A
12-2/M82	2.14105
12-4/M82	N/A	N/A
1-3/M82	0.66081
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.8547	0.501
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.91655	1
6-2/M82	0.35762
6-3/M82	1.00806	1
7-1/M82	N/A	N/A
7-2/M82	0.67481	0.553
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7111	0.243
IL2-6/WTpooled	0.7553	0.383
IL7-5/WTpooled	1.05196	1
IL7-3/WTpooled	1.14768	1
IL12-4/WTpooled	0.81607	0.539
IL1-4/WTpooled	0.84001	0.444
WT/WTpooled	0.9046	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08103	0.774
DC3000/delta hrp 6h	1.49089	0.777
DC3000/delta hrp 12h	1.14109	1
DC3000/delta hrp 24h	0.94583	0.618

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.72925	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	2.03752
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.60314	0.286
transgenic ySAMdc/azygous control (breaker)	1.54086	1
transgenic ySAMdc/azygous control (red)	0.82885	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95171	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96012	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35643	0.307
Manapal/WT (break)	0.75787	1
Manapal/WT (red)	2.03973	0.413