Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.1.10.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89837	0.496
27DAP/17DAP	1.2749	1
39DAP/27DAP	0.92861	0.67
41DAP/39DAP	1.28173	0.468
42DAP/41DAP	1.14459	1
43DAP/42DAP	0.74868	0.61
47DAP/43DAP	1.36166	0.309
52DAP/47DAP	1.34274	0.521
57DAP/52DAP	1.04022	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97171	0.402
17DAP/reference	1.3411	0.014
27DAP/reference	1.18231	0.098
39DAP/reference	1.26343	0.086
41DAP/reference	1.20052	0.241
42DAP/reference	0.9291	0.211
43DAP/reference	0.87657	0.148
47DAP/reference	0.73568	0.161
52DAP/reference	0.59513	0.013
57DAP/reference	0.78023	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87901	0.194
27DAP/17DAP	0.96606	0.878
39DAP/27DAP	1.21702	0.275
41DAP/39DAP	1.19763	0.663
42DAP/41DAP	0.89503	0.3
43DAP/42DAP	0.97509	0.665
47DAP/43DAP	1.13544	0.043
52DAP/47DAP	1.11591	0.681
57DAP/52DAP	1.51967	0.036
57DAP/7DAP	1.59202	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87106	0.296
17DAP/reference	1.1631	0.269
27DAP/reference	1.01917	1
39DAP/reference	0.81951	0.109
41DAP/reference	0.71793	0.046
42DAP/reference	0.80946	0.095
43DAP/reference	0.95492	0.351
47DAP/reference	0.82012	0.101
52DAP/reference	0.74463	0.038
57DAP/reference	0.94256	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17615	0.129
17DAP/reference	1.11952	0.257
27DAP/reference	0.88264	0.173
39DAP/reference	0.70579	0.016
41DAP/reference	0.74167	0.063
42DAP/reference	0.83745	0.042
43DAP/reference	1.10305	0.728
47DAP/reference	1.03251	0.867
52DAP/reference	0.87756	0.22
57DAP/reference	0.99852	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05123	0.775
17DAP/reference	0.94212	0.528
27DAP/reference	1.29083	0.149
39DAP/reference	1.02936	1
41DAP/reference	1.00146	1
42DAP/reference	0.98012	0.671
43DAP/reference	0.69683	0.044
47DAP/reference	0.81185	0.125
52DAP/reference	1.65819	0.384
57DAP/reference	0.78347	0.177

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13743	0.966
26DAP/20DAP	1.01822	1
34DAP/26DAP	0.92939	0.548
51DAP/34DAP	1.85916	0.034
52DAP/51DAP	0.71098	0.151
53DAP/52DAP	1.3085	0.117
55DAP/53DAP	0.8596	0.163
57DAP/55DAP	1.05664	1
62DAP/57DAP	1.00926	1
68DAP/62DAP	0.97253	0.863
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92549	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.53465	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.9223	N/A
4-3-2/M82	1.5787	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	0.99797	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.26419	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82331	0.243
IL2-6/WTpooled	0.99269	1
IL7-5/WTpooled	0.90507	1
IL7-3/WTpooled	1.19881	1
IL12-4/WTpooled	0.72435	0.554
IL1-4/WTpooled	1.01478	1
WT/WTpooled	0.7656	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	1.09177	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.7808	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.06829	1
DC3000/delta hrp 24h	1.02347	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14124	0.408
DC3000 delta B/DC3000 delta AB	1.14966	0.311

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00944	1
Var 0h	1.01593	1
Var 12h I row2-row1	0.91887	0.357
Var 12h NI row2-row1	0.96997	0.906
Var 36h I row2-row1	1.06471	0.368
Var 36h NI row2-row1	0.89296	0.421
Var 60h I row2-row1	1.33226	1
Var 60h NI row2-row1	0.92694	0.932
Time course 0hI-0hNI	1.0046	1
Time course 12hI-12hNI	0.98253	0.87
Time course 36hI-36hNI	0.89298	0.23
Time course 60hI-60hNI	1.38094	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)	1.17999	0.571
transgenic ySAMdc/azygous control (breaker)	1.834	1
transgenic ySAMdc/azygous control (red)	2.08288	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98804	0.651

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.50886	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17445	0.086
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.15957	0.108