Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.18.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85196	0.405
27DAP/17DAP	1.09699	1
39DAP/27DAP	0.99094	0.782
41DAP/39DAP	1.19914	0.54
42DAP/41DAP	0.88892	1
43DAP/42DAP	0.8107	0.801
47DAP/43DAP	1.64071	0.309
52DAP/47DAP	1.29381	0.516
57DAP/52DAP	0.7794	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88272	0.103
17DAP/reference	0.93792	0.224
27DAP/reference	0.96201	0.567
39DAP/reference	1.02639	0.76
41DAP/reference	0.90569	0.267
42DAP/reference	1.02938	0.544
43DAP/reference	1.03906	0.73
47DAP/reference	1.01208	1
52DAP/reference	0.8668	0.128
57DAP/reference	0.96123	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24705	0.445
27DAP/17DAP	1.15971	0.811
39DAP/27DAP	0.72554	0.082
41DAP/39DAP	1.25644	0.427
42DAP/41DAP	0.88429	0.466
43DAP/42DAP	0.91751	0.576
47DAP/43DAP	1.04441	0.957
52DAP/47DAP	0.85886	0.522
57DAP/52DAP	0.895	0.264
57DAP/7DAP	1.54791	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25897	0.106
17DAP/reference	1.1644	0.399
27DAP/reference	1.20135	0.049
39DAP/reference	1.17159	0.297
41DAP/reference	1.12946	0.593
42DAP/reference	1.07171	0.686
43DAP/reference	1.2794	0.037
47DAP/reference	1.20893	0.084
52DAP/reference	1.04759	0.328
57DAP/reference	1.25074	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90528	0.318
17DAP/reference	0.8426	0.012
27DAP/reference	0.92006	0.292
39DAP/reference	0.89863	0.089
41DAP/reference	0.93511	0.277
42DAP/reference	0.86495	0.081
43DAP/reference	0.92864	0.352
47DAP/reference	0.95405	0.24
52DAP/reference	0.80167	0.006
57DAP/reference	0.75392	0.016

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14851	0.56
17DAP/reference	1.05399	0.376
27DAP/reference	1.06054	0.312
39DAP/reference	1.05404	0.483
41DAP/reference	0.99765	0.754
42DAP/reference	1.01613	0.923
43DAP/reference	1.04834	0.961
47DAP/reference	0.92118	0.191
52DAP/reference	1.09531	0.724
57DAP/reference	0.86236	0.105

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0742	0.966
26DAP/20DAP	1.38265	1
34DAP/26DAP	1.00963	0.972
51DAP/34DAP	1.41688	0.281
52DAP/51DAP	1.1408	0.904
53DAP/52DAP	1.15206	0.334
55DAP/53DAP	0.8444	0.376
57DAP/55DAP	1.55074	0.626
62DAP/57DAP	1.02267	0.994
68DAP/62DAP	0.89849	0.7
68DAP/14DAP	1.32771	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.76688

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97953	0.658
Mature Green Tomato/Ripe Tomato	0.2776
Immature Eggplant/Mature Eggplant	0.91917	0.545
Ripe Pepper/Ripe Tomato	0.94947	1
Mature Eggplant/Ripe Tomato	1.09807

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	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	0.91864
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.41397	0.277
IL2-6/WTpooled	1.01252	1
IL7-5/WTpooled	0.80989	1
IL7-3/WTpooled	1.03791	1
IL12-4/WTpooled	0.85453	0.71
IL1-4/WTpooled	1.34341	1
WT/WTpooled	1.04603	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	1.06667	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10556	1
DC3000/delta hrp 6h	0.89264	0.95
DC3000/delta hrp 12h	0.991	1
DC3000/delta hrp 24h	1.03147	0.821

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	0.96713	1
Exp 36h	1.28338	0.693
Exp 60h	1.21768	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.19984	1
Var 0h	0.85579	0.933
Var 12h I row2-row1	1.04625	0.654
Var 12h NI row2-row1	1.80397	0.649
Var 36h I row2-row1	1.29699	0.489
Var 36h NI row2-row1	0.59004	1
Var 60h I row2-row1	0.72394	0.285
Var 60h NI row2-row1	0.71875	0.63
Time course 0hI-0hNI	1.17861	0.451
Time course 12hI-12hNI	1.22288	0.178
Time course 36hI-36hNI	3.70382	0.005
Time course 60hI-60hNI	18.5206	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)	0.90001	0.314
transgenic ySAMdc/azygous control (breaker)	0.93586	0.251
transgenic ySAMdc/azygous control (red)	1.00074	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07486	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73243	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0327	1
Manapal/WT (break)	0.7326	0.333
Manapal/WT (red)	0.85895	0.36