Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.11.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.85127	0.098
27DAP/17DAP	0.83219	0.478
39DAP/27DAP	1.78407	0.188
41DAP/39DAP	0.75848	0.153
42DAP/41DAP	0.80111	0.774
43DAP/42DAP	0.80343	0.495
47DAP/43DAP	1.5506	0.316
52DAP/47DAP	1.34683	0.619
57DAP/52DAP	1.03394	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96087	0.432
17DAP/reference	1.02563	0.546
27DAP/reference	1.02791	0.587
39DAP/reference	1.01161	0.679
41DAP/reference	1.00739	1
42DAP/reference	0.98967	0.425
43DAP/reference	1.00466	1
47DAP/reference	1.03054	0.419
52DAP/reference	0.94851	0.237
57DAP/reference	1.04509	0.6

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21907	0.218
27DAP/17DAP	0.98	0.887
39DAP/27DAP	1.15093	0.259
41DAP/39DAP	1.0181	0.909
42DAP/41DAP	0.95169	0.641
43DAP/42DAP	0.87183	0.149
47DAP/43DAP	1.03481	0.884
52DAP/47DAP	1.05409	0.799
57DAP/52DAP	0.91399	0.349
57DAP/7DAP	0.98481	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89785	0.146
17DAP/reference	0.99548	0.599
27DAP/reference	1.01386	1
39DAP/reference	1.06261	0.74
41DAP/reference	0.94233	0.146
42DAP/reference	1.11962	0.076
43DAP/reference	0.95974	0.421
47DAP/reference	0.96887	0.671
52DAP/reference	1.12627	0.375
57DAP/reference	1.22221	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01089	0.802
17DAP/reference	1.09262	0.094
27DAP/reference	0.92485	0.317
39DAP/reference	1.00511	1
41DAP/reference	0.89092	0.064
42DAP/reference	0.88606	0.014
43DAP/reference	1.14953	0.205
47DAP/reference	0.9835	0.512
52DAP/reference	0.96936	0.302
57DAP/reference	1.1099	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96558	0.362
17DAP/reference	0.96692	0.508
27DAP/reference	0.90738	0.133
39DAP/reference	1.0722	0.275
41DAP/reference	1.02323	0.961
42DAP/reference	0.97802	0.671
43DAP/reference	1.04772	0.721
47DAP/reference	0.93369	0.08
52DAP/reference	0.88737	0.31
57DAP/reference	0.80454	0.055

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98101	1
26DAP/20DAP	0.75291	0.223
34DAP/26DAP	0.96495	0.97
51DAP/34DAP	0.90981	0.64
52DAP/51DAP	0.77788	1
53DAP/52DAP	1.38649	0.1
55DAP/53DAP	0.96195	0.686
57DAP/55DAP	0.96791	0.831
62DAP/57DAP	0.98514	0.994
68DAP/62DAP	1.62117	0.657
68DAP/14DAP	0.88351	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.6101	0.081

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.08535	0.058
Mature Green Tomato/Ripe Tomato	1.23468	0.632
Immature Eggplant/Mature Eggplant	0.80079	0.197
Ripe Pepper/Ripe Tomato	0.40202	0.224
Mature Eggplant/Ripe Tomato	0.66624	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0948	0.591
1-1-2/M82	0.98202	1
12-2/M82	1.25902	1
12-4/M82	0.95089	1
1-3/M82	0.9603	1
2-1-1/M82	0.81758	0.92
2-1/M82	0.78285
2-6/M82	1.00489	1
3-2/M82	0.79033	0.451
4-1-1/M82	1.03926	1
4-1/M82	1.23911	0.853
4-3-2/M82	0.97064
4-3/M82	1.36203	1
5-3/M82	1.03784	1
6-2/M82	0.68303
6-3/M82	0.96401
7-1/M82	1.0799
7-2/M82	0.82453	0.599
9-3-2/M82	1.15407	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	2.03065	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.56117	1
IL12-4/WTpooled	1.58572	0.532
IL1-4/WTpooled	0.98801	1
WT/WTpooled	1.05506	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	1.22863	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04882	0.875
DC3000/delta hrp 6h	0.99971	0.95
DC3000/delta hrp 12h	0.90415	1
DC3000/delta hrp 24h	1.03556	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10567
DC3000 delta B/DC3000 delta AB	1.27385	0.256

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	1.68094	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98699	1
Var 0h	0.8797	1
Var 12h I row2-row1	1.09338	0.242
Var 12h NI row2-row1	0.91213	0.82
Var 36h I row2-row1	0.75875	0.805
Var 36h NI row2-row1	0.76889	0.645
Var 60h I row2-row1	1.02414	1
Var 60h NI row2-row1	0.94259	0.932
Time course 0hI-0hNI	1.04747	0.603
Time course 12hI-12hNI	1.32326	0.012
Time course 36hI-36hNI	1.17856	0.008
Time course 60hI-60hNI	1.5344	0.012

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)	0.92218	0.324
transgenic ySAMdc/azygous control (breaker)	0.91307	0.49
transgenic ySAMdc/azygous control (red)	1.17276	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98023	0.196

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85098	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89148	1
Manapal/WT (break)	0.83402	0.333
Manapal/WT (red)	1.21243	0.164