Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.60174	0.961
27DAP/17DAP	2.44805	0.203
39DAP/27DAP	0.80981	0.482
41DAP/39DAP	0.7849	0.306
42DAP/41DAP	1.3387	0.644
43DAP/42DAP	0.97431	0.912
47DAP/43DAP	0.75602	0.245
52DAP/47DAP	2.24604	0.139
57DAP/52DAP	0.69546	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90942	0.154
17DAP/reference	0.85404	0.035
27DAP/reference	0.87188	0.119
39DAP/reference	0.87264	0.017
41DAP/reference	0.80982	0.021
42DAP/reference	1.18547	0.005
43DAP/reference	0.96063	0.448
47DAP/reference	1.02394	0.862
52DAP/reference	1.05158	0.8
57DAP/reference	1.08491	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0053	0.763
27DAP/17DAP	0.94512	0.854
39DAP/27DAP	1.12216	0.422
41DAP/39DAP	1.08391	0.799
42DAP/41DAP	1.01554	0.924
43DAP/42DAP	1.30581	0.212
47DAP/43DAP	1.19543	0.325
52DAP/47DAP	1.11468	0.635
57DAP/52DAP	1.26757	0.095
57DAP/7DAP	1.44202	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78286	0.06
17DAP/reference	0.94202	0.253
27DAP/reference	0.75795	0.014
39DAP/reference	0.94906	0.307
41DAP/reference	1.16	0.184
42DAP/reference	1.20898	0.308
43DAP/reference	1.35424	0.016
47DAP/reference	0.98056	0.671
52DAP/reference	0.99136	0.621
57DAP/reference	2.21535	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90885	0.268
17DAP/reference	0.89858	0.109
27DAP/reference	1.07141	0.455
39DAP/reference	1.01463	1
41DAP/reference	1.08486	0.599
42DAP/reference	0.96341	0.433
43DAP/reference	1.00082	0.774
47DAP/reference	1.05755	0.527
52DAP/reference	0.97977	0.5
57DAP/reference	0.88854	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70801	0.039
17DAP/reference	0.91823	0.286
27DAP/reference	0.95089	0.302
39DAP/reference	0.88292	0.029
41DAP/reference	0.9793	0.618
42DAP/reference	0.95096	0.445
43DAP/reference	1.11447	0.19
47DAP/reference	0.97479	0.494
52DAP/reference	1.25879	0.148
57DAP/reference	1.47749	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03661	0.966
26DAP/20DAP	0.84944	0.512
34DAP/26DAP	0.92726	0.803
51DAP/34DAP	1.11146	0.677
52DAP/51DAP	1.25649	0.034
53DAP/52DAP	1.46443	0.25
55DAP/53DAP	1.12544	0.519
57DAP/55DAP	0.80243	0.178
62DAP/57DAP	0.90436	0.28
68DAP/62DAP	1.13944	0.944
68DAP/14DAP	1.74118	0.017

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91792	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73319	0.202
Mature Green Tomato/Ripe Tomato	0.22071	0.017
Immature Eggplant/Mature Eggplant	1.07896	0.363
Ripe Pepper/Ripe Tomato	0.55226	0.224
Mature Eggplant/Ripe Tomato	0.42511	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.71401
1-1-2/M82	N/A	N/A
12-2/M82	3.70233
12-4/M82	0.49031	0.175
1-3/M82	N/A	N/A
2-1-1/M82	1.2438
2-1/M82	N/A	N/A
2-6/M82	1.85518	0.505
3-2/M82	N/A	N/A
4-1-1/M82	2.06207
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.73733
5-3/M82	0.39731	0.447
6-2/M82	3.31101
6-3/M82	0.47535
7-1/M82	0.46623
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	0.94709	0.321
IL2-6/WTpooled	1.10458	0.659
IL7-5/WTpooled	0.84639
IL7-3/WTpooled	1.07087	1
IL12-4/WTpooled	1.03612	0.891
IL1-4/WTpooled	1.12025	1
WT/WTpooled	0.99559	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	2.11876	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13514	0.656
DC3000/delta hrp 6h	1.0046	0.95
DC3000/delta hrp 12h	0.94633	1
DC3000/delta hrp 24h	1.46739	0.028

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	0.99491	1
Exp 36h	1.2962	0.409
Exp 60h	1.39949	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06368	1
Var 0h	0.57694	0.332
Var 12h I row2-row1	1.04166	0.654
Var 12h NI row2-row1	0.93018	0.906
Var 36h I row2-row1	0.84505	1
Var 36h NI row2-row1	0.62572	0.645
Var 60h I row2-row1	0.88551	0.832
Var 60h NI row2-row1	0.91498	1
Time course 0hI-0hNI	1.38293	0.603
Time course 12hI-12hNI	1.24252	0.14
Time course 36hI-36hNI	4.03476	0.006
Time course 60hI-60hNI	23.9809	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)	1.22544	0.397
transgenic ySAMdc/azygous control (breaker)	0.50896	0.134
transgenic ySAMdc/azygous control (red)	1.04583	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13594	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.20791	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79876	0.172
Manapal/WT (break)	0.87074	1
Manapal/WT (red)	0.67078	0.315