Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.9.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.55151	0.183
27DAP/17DAP	1.70403	0.399
39DAP/27DAP	0.80353	0.447
41DAP/39DAP	1.18358	1
42DAP/41DAP	1.10657	0.978
43DAP/42DAP	1.18144	0.629
47DAP/43DAP	1.40557	0.513
52DAP/47DAP	0.86031	0.612
57DAP/52DAP	0.892	0.903

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94246	0.177
17DAP/reference	1.10194	0.055
27DAP/reference	0.96769	0.581
39DAP/reference	1.06588	0.214
41DAP/reference	1.16211	0.073
42DAP/reference	0.88923	0.056
43DAP/reference	0.94491	0.36
47DAP/reference	0.87182	0.032
52DAP/reference	0.69508	0.021
57DAP/reference	0.75331	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91041	0.402
27DAP/17DAP	0.99151	0.943
39DAP/27DAP	1.14982	0.483
41DAP/39DAP	1.00836	1
42DAP/41DAP	1.01734	1
43DAP/42DAP	1.12587	0.147
47DAP/43DAP	0.97964	0.896
52DAP/47DAP	0.97133	0.907
57DAP/52DAP	0.97721	0.73
57DAP/7DAP	1.12111	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87983	0.27
17DAP/reference	1.00918	1
27DAP/reference	1.16697	0.664
39DAP/reference	0.80167	0.034
41DAP/reference	0.74603	0.031
42DAP/reference	0.71178	0.013
43DAP/reference	0.87731	0.202
47DAP/reference	0.92802	0.504
52DAP/reference	0.83092	0.077
57DAP/reference	0.96895	0.443

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9186	0.342
17DAP/reference	1.23368	0.448
27DAP/reference	0.92902	0.317
39DAP/reference	0.93835	0.25
41DAP/reference	0.9645	0.393
42DAP/reference	0.80257	0.014
43DAP/reference	1.43432	0.029
47DAP/reference	0.86876	0.04
52DAP/reference	1.02514	0.838
57DAP/reference	1.45059	0.062

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10858	0.356
17DAP/reference	1.13277	0.436
27DAP/reference	1.10113	0.248
39DAP/reference	1.06874	0.377
41DAP/reference	1.08009	0.554
42DAP/reference	0.84989	0.172
43DAP/reference	0.80173	0.158
47DAP/reference	0.91582	0.335
52DAP/reference	0.92156	0.455
57DAP/reference	0.75885	0.12

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08332	0.966
26DAP/20DAP	0.84555	0.223
34DAP/26DAP	1.20698	0.819
51DAP/34DAP	0.95722	0.758
52DAP/51DAP	0.99473	1
53DAP/52DAP	1.02228	0.895
55DAP/53DAP	1.25326	0.287
57DAP/55DAP	0.99951	0.927
62DAP/57DAP	1.0146	1
68DAP/62DAP	0.84323	0.406
68DAP/14DAP	0.56684	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.67247	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	5.90379	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.15594

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.83095	0.907
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	0.71163
2-1-1/M82	0.3633
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	0.9574	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.95493
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.37484	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.2592
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.75217
IL1-4/WTpooled	1.11375	1
WT/WTpooled	N/A	N/A

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	1.16289	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87686
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.99847	1
DC3000/delta hrp 24h	1.07421	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11387	0.313
DC3000 delta B/DC3000 delta AB	0.89473	0.456

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	1.06154	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03772	1
Var 0h	1.24792	0.374
Var 12h I row2-row1	1.21115	0.196
Var 12h NI row2-row1	0.76973	0.494
Var 36h I row2-row1	0.91268	1
Var 36h NI row2-row1	0.85605	0.584
Var 60h I row2-row1	1.45362	0.562
Var 60h NI row2-row1	1.33445	0.904
Time course 0hI-0hNI	1.11783	0.662
Time course 12hI-12hNI	1.04321	0.786
Time course 36hI-36hNI	1.03161	0.799
Time course 60hI-60hNI	1.17973	0.069

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)	1.08918	0.654
transgenic ySAMdc/azygous control (breaker)	1.07718	1
transgenic ySAMdc/azygous control (red)	1.07209	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00339	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80144	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94491	1
Manapal/WT (break)	0.81715	0.17
Manapal/WT (red)	1.19136	1