Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.11.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23112	0.477
27DAP/17DAP	1.71172	0.399
39DAP/27DAP	0.82082	0.482
41DAP/39DAP	0.97029	0.876
42DAP/41DAP	0.8476	0.774
43DAP/42DAP	1.14003	0.885
47DAP/43DAP	1.27758	0.555
52DAP/47DAP	0.97076	0.88
57DAP/52DAP	0.98151	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03516	0.846
17DAP/reference	1.14024	0.083
27DAP/reference	1.03102	0.771
39DAP/reference	1.06949	0.318
41DAP/reference	1.07031	0.338
42DAP/reference	0.85548	0.004
43DAP/reference	0.94385	0.316
47DAP/reference	0.8486	0.004
52DAP/reference	0.96412	0.393
57DAP/reference	0.86498	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94445	0.56
27DAP/17DAP	1.22789	0.362
39DAP/27DAP	1.0238	0.862
41DAP/39DAP	0.90309	0.645
42DAP/41DAP	0.93081	0.576
43DAP/42DAP	1.10558	0.478
47DAP/43DAP	1.05448	0.822
52DAP/47DAP	1.05659	0.892
57DAP/52DAP	1.25644	0.249
57DAP/7DAP	0.94958	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11164	0.576
17DAP/reference	1.06378	0.18
27DAP/reference	1.02262	0.551
39DAP/reference	0.96498	0.411
41DAP/reference	1.03568	0.655
42DAP/reference	0.96814	0.458
43DAP/reference	0.93406	0.252
47DAP/reference	0.97255	0.671
52DAP/reference	1.08362	0.636
57DAP/reference	1.15095	0.1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08505	0.491
17DAP/reference	1.10767	0.367
27DAP/reference	0.86815	0.119
39DAP/reference	0.96189	0.37
41DAP/reference	1.13802	0.688
42DAP/reference	0.96201	0.433
43DAP/reference	1.16868	0.453
47DAP/reference	0.79759	0.054
52DAP/reference	1.05966	0.471
57DAP/reference	1.05309	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13407	0.273
17DAP/reference	0.91958	0.398
27DAP/reference	1.05496	0.672
39DAP/reference	0.89473	0.101
41DAP/reference	1.10318	0.425
42DAP/reference	1.0206	0.907
43DAP/reference	1.0104	0.738
47DAP/reference	0.81903	0.231
52DAP/reference	0.96186	0.562
57DAP/reference	0.68601	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99451	1
26DAP/20DAP	1.21228	0.683
34DAP/26DAP	1.17693	0.819
51DAP/34DAP	1.41431
52DAP/51DAP	1.04388	0.86
53DAP/52DAP	1.07691	0.806
55DAP/53DAP	1.13738	0.452
57DAP/55DAP	1.04278	0.925
62DAP/57DAP	1.07077	0.8
68DAP/62DAP	0.87929	0.543
68DAP/14DAP	0.96041	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96587	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.15521	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.40891
Mature Eggplant/Ripe Tomato	2.41414	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96864	0.907
1-1-2/M82	1.05236
12-2/M82	1.19653
12-4/M82	0.79593	0.619
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	0.7259
4-1-1/M82	N/A	N/A
4-1/M82	1.14534	0.853
4-3-2/M82	1.26504
4-3/M82	0.63084
5-3/M82	0.97341	1
6-2/M82	N/A	N/A
6-3/M82	1.34611
7-1/M82	1.19687
7-2/M82	N/A	N/A
9-3-2/M82	0.75917	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.34628	0.277
IL2-6/WTpooled	0.72681	0.348
IL7-5/WTpooled	1.18389	0.792
IL7-3/WTpooled	1.22398	1
IL12-4/WTpooled	1.346	0.532
IL1-4/WTpooled	0.84383	0.562
WT/WTpooled	1.11115	0.89

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	1.24427	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18561	0.774
DC3000/delta hrp 6h	1.89606
DC3000/delta hrp 12h	1.20208	1
DC3000/delta hrp 24h	1.14317	0.37

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	1.19222	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06066	1
Exp 36h	1.08759	0.943
Exp 60h	1.47139	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03818	1
Var 0h	1.3324	0.936
Var 12h I row2-row1	0.99145	1
Var 12h NI row2-row1	1.03258	1
Var 36h I row2-row1	1.02203	1
Var 36h NI row2-row1	0.94938	0.791
Var 60h I row2-row1	0.77225	0.285
Var 60h NI row2-row1	0.94466	0.69
Time course 0hI-0hNI	1.04567	0.852
Time course 12hI-12hNI	1.41276	0.027
Time course 36hI-36hNI	1.71211	0.005
Time course 60hI-60hNI	2.4857	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)	1.14891	0.511
transgenic ySAMdc/azygous control (breaker)	2.7695	0.248
transgenic ySAMdc/azygous control (red)	1.46934	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93913	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83078	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90781	1
Manapal/WT (break)	0.84301	0.333
Manapal/WT (red)	1.23721	0.413