Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.20.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	18.3498	0.049
27DAP/17DAP	1.72217	0.3
39DAP/27DAP	1.26117	0.372
41DAP/39DAP	0.61921	0.098
42DAP/41DAP	0.69836	0.774
43DAP/42DAP	0.96753	0.91
47DAP/43DAP	0.44671	0.049
52DAP/47DAP	0.57531	0.137
57DAP/52DAP	1.03419	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84317	0.097
17DAP/reference	1.10898	0.492
27DAP/reference	0.83031	0.021
39DAP/reference	1.15253	0.386
41DAP/reference	0.88273	0.542
42DAP/reference	0.77418	0.015
43DAP/reference	0.89309
47DAP/reference	0.72728	0.014
52DAP/reference	0.82711	0.105
57DAP/reference	1.41306	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.96122	0.749
27DAP/17DAP	0.96962	0.878
39DAP/27DAP	0.80118	0.311
41DAP/39DAP	1.28842	0.753
42DAP/41DAP	1.07528	0.864
43DAP/42DAP	0.69678	0.189
47DAP/43DAP	1.08649	0.977
52DAP/47DAP	0.85632	0.491
57DAP/52DAP	1.4299	0.158
57DAP/7DAP	1.24759

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86152	0.082
17DAP/reference	0.7917	0.011
27DAP/reference	0.74272	0.01
39DAP/reference	0.7514	0.011
41DAP/reference	0.82553	0.086
42DAP/reference	0.63465	0.01
43DAP/reference	0.7406	0.011
47DAP/reference	0.67566	0.04
52DAP/reference	0.77373	0.012
57DAP/reference	0.74304	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91963	0.426
17DAP/reference	0.5795	0.054
27DAP/reference	0.72821	0.212
39DAP/reference	0.66078	0.037
41DAP/reference	0.66592	0.045
42DAP/reference	0.87196	0.046
43DAP/reference	1.20181	0.116
47DAP/reference	0.91162	0.173
52DAP/reference	0.72428	0.037
57DAP/reference	0.68501	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78099	0.05
17DAP/reference	0.87403	0.089
27DAP/reference	0.73992	0.024
39DAP/reference	0.76446	0.029
41DAP/reference	0.78187	0.019
42DAP/reference	0.72961	0.018
43DAP/reference	0.81189	0.047
47DAP/reference	0.86895	0.161
52DAP/reference	0.58833	0.066
57DAP/reference	0.81021	0.111

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98196	1
26DAP/20DAP	1.68051
34DAP/26DAP	1.72729	0.542
51DAP/34DAP	1.27936	0.692
52DAP/51DAP	1.07717	1
53DAP/52DAP	1.24087	0.858
55DAP/53DAP	1.05575	0.911
57DAP/55DAP	1.09826	1
62DAP/57DAP	1.00851	1
68DAP/62DAP	1.41763	0.23
68DAP/14DAP	1.78948	0.032

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91034	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	5.9821	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.256

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	1.07197
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	3.82933
4-1-1/M82	N/A	N/A
4-1/M82	33.3562	0.397
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	1.6265
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05033	0.254
IL2-6/WTpooled	0.92246	1
IL7-5/WTpooled	0.86487	1
IL7-3/WTpooled	0.95797	1
IL12-4/WTpooled	0.94836	1
IL1-4/WTpooled	0.95741	0.476
WT/WTpooled	1.11651	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	1.1755	0.921
DC3000/delta hrp 6h	0.91528
DC3000/delta hrp 12h	1.05392	1
DC3000/delta hrp 24h	1.03893	0.779

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	1.14057	1
Exp 36h	2.4736	0.693
Exp 60h	1.83754	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.30094
Var 0h	N/A	N/A
Var 12h I row2-row1	1.0933	0.736
Var 12h NI row2-row1	0.85663	0.466
Var 36h I row2-row1	1.1303	0.908
Var 36h NI row2-row1	0.52368	0.61
Var 60h I row2-row1	1.09176	0.562
Var 60h NI row2-row1	0.59295	1
Time course 0hI-0hNI	0.81236	0.934
Time course 12hI-12hNI	1.21881	0.56
Time course 36hI-36hNI	1.58116	0.013
Time course 60hI-60hNI	5.17437	0.013

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)	1.30922	0.339
transgenic ySAMdc/azygous control (breaker)	0.8477	0.49
transgenic ySAMdc/azygous control (red)	0.97242	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99011	0.651

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87461	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.6967	1
Manapal/WT (break)	1.0324	1
Manapal/WT (red)	0.8996	0.315