Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.4.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.25315	0.014
27DAP/17DAP	0.75657	0.293
39DAP/27DAP	0.94778	0.663
41DAP/39DAP	0.85515	0.485
42DAP/41DAP	1.29253	0.552
43DAP/42DAP	0.87821	0.801
47DAP/43DAP	1.0348	0.953
52DAP/47DAP	1.14127	0.964
57DAP/52DAP	1.32374	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32938	0.034
17DAP/reference	0.89765	0.038
27DAP/reference	0.96718	0.525
39DAP/reference	1.02314	0.603
41DAP/reference	0.89847	0.021
42DAP/reference	0.90162	0.017
43DAP/reference	0.91543	0.287
47DAP/reference	0.94152	0.174
52DAP/reference	1.03981	0.607
57DAP/reference	1.11424	0.094

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.34927	0.022
27DAP/17DAP	0.97362	0.919
39DAP/27DAP	0.95699	0.759
41DAP/39DAP	1.1769	0.55
42DAP/41DAP	0.90893	0.425
43DAP/42DAP	0.57796	0.022
47DAP/43DAP	0.81791	0.225
52DAP/47DAP	1.05213	0.979
57DAP/52DAP	1.12543	0.718
57DAP/7DAP	0.25416	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.32696	0.024
17DAP/reference	1.3359	0.008
27DAP/reference	0.97215	0.283
39DAP/reference	1.21885	0.046
41DAP/reference	1.19175	0.101
42DAP/reference	1.2214	0.024
43DAP/reference	0.99295	0.608
47DAP/reference	1.05268	0.965
52DAP/reference	1.15471	0.038
57DAP/reference	1.0005	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65492	0.099
17DAP/reference	0.89059	0.176
27DAP/reference	0.88095	0.108
39DAP/reference	0.88031	0.091
41DAP/reference	0.94661	0.183
42DAP/reference	0.99548	0.655
43DAP/reference	0.83448	0.144
47DAP/reference	0.99901	0.73
52DAP/reference	1.02278	1
57DAP/reference	0.92377	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.14905	0.039
17DAP/reference	1.01817	1
27DAP/reference	1.00445	0.843
39DAP/reference	0.91862	0.179
41DAP/reference	0.93672	0.209
42DAP/reference	0.95408	0.552
43DAP/reference	0.80792	0.095
47DAP/reference	0.81916	0.153
52DAP/reference	0.95263	0.611
57DAP/reference	1.35965	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95926	1
26DAP/20DAP	1.30151	0.437
34DAP/26DAP	0.50266	0.067
51DAP/34DAP	0.4665	0.06
52DAP/51DAP	0.80987	1
53DAP/52DAP	0.84207	0.393
55DAP/53DAP	0.68316	0.019
57DAP/55DAP	0.98166	0.823
62DAP/57DAP	0.95423	1
68DAP/62DAP	1.3735	0.44
68DAP/14DAP	0.96968	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.64684	0.035

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.89229	0.058
Mature Green Tomato/Ripe Tomato	5.06934	0.07
Immature Eggplant/Mature Eggplant	0.73064	0.069
Ripe Pepper/Ripe Tomato	0.49039	0.224
Mature Eggplant/Ripe Tomato	8.9543	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.65171
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.04175	1
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	0.79739
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.08713	0.429
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.12353
6-2/M82	0.87957
6-3/M82	N/A	N/A
7-1/M82	1.33187
7-2/M82	1.29487	0.299
9-3-2/M82	0.83414

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.54769
IL2-6/WTpooled	0.81092	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.68142	0.362
IL12-4/WTpooled	0.88779	0.71
IL1-4/WTpooled	1.0579	1
WT/WTpooled	1.01021	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	0.83926	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10169	0.875
DC3000/delta hrp 6h	0.92719	0.95
DC3000/delta hrp 12h	1.06707	1
DC3000/delta hrp 24h	0.80359	0.194

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	1.06505	0.477

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.60072	1
Exp 36h	1.93865	1
Exp 60h	1.04056	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97549	1
Var 0h	1.0772	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	0.71745

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)	0.88616	0.314
transgenic ySAMdc/azygous control (breaker)	0.94648	0.49
transgenic ySAMdc/azygous control (red)	1.17453	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07835	0.057

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72425	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80013	0.172
Manapal/WT (break)	0.75891	0.262
Manapal/WT (red)	1.17015	0.413