Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.1.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85317	0.405
27DAP/17DAP	1.0413	1
39DAP/27DAP	1.68822	0.181
41DAP/39DAP	0.87736	0.518
42DAP/41DAP	0.98509	1
43DAP/42DAP	1.01552	1
47DAP/43DAP	1.00936	0.943
52DAP/47DAP	0.91937	0.754
57DAP/52DAP	1.45154	0.652

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42443	0.007
17DAP/reference	1.38715	0.015
27DAP/reference	1.19341	0.135
39DAP/reference	1.19232	0.423
41DAP/reference	1.47419	0.014
42DAP/reference	1.41753	0.002
43DAP/reference	1.06295	0.495
47DAP/reference	1.30504	0.001
52DAP/reference	1.50143	0.01
57DAP/reference	1.0505	0.829

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89551	0.251
27DAP/17DAP	1.20621	0.506
39DAP/27DAP	0.9459	0.66
41DAP/39DAP	1.55519	0.015
42DAP/41DAP	0.8463	0.156
43DAP/42DAP	0.72402	0.027
47DAP/43DAP	1.13138	0.464
52DAP/47DAP	0.9737	0.898
57DAP/52DAP	0.76585	0.147
57DAP/7DAP	0.61895	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07424	0.732
17DAP/reference	0.82581	0.094
27DAP/reference	0.92363	0.264
39DAP/reference	0.95236	0.307
41DAP/reference	0.85981	0.079
42DAP/reference	0.98414	0.554
43DAP/reference	0.90905	0.151
47DAP/reference	1.11287	0.745
52DAP/reference	0.90544	0.066
57DAP/reference	0.97291	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44378	0.047
17DAP/reference	1.66824	0.01
27DAP/reference	1.43741	0.049
39DAP/reference	1.51573	0.026
41DAP/reference	1.68793	0.008
42DAP/reference	1.42955	0.015
43DAP/reference	1.52848	0.018
47DAP/reference	1.29302	0.008
52DAP/reference	1.54394	0.008
57DAP/reference	1.76611	0.016

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93888	0.335
17DAP/reference	1.05878	0.436
27DAP/reference	0.93548	0.539
39DAP/reference	1.21294	0.496
41DAP/reference	0.82584	0.167
42DAP/reference	0.96871	0.671
43DAP/reference	1.01291	0.827
47DAP/reference	1.26013	0.014
52DAP/reference	0.98261	0.704
57DAP/reference	0.86531	0.184

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10524	0.966
26DAP/20DAP	1.20476	0.594
34DAP/26DAP	1.04247	1
51DAP/34DAP	1.24565	0.795
52DAP/51DAP	0.95008	1
53DAP/52DAP	1.21298	0.58
55DAP/53DAP	0.95732	0.775
57DAP/55DAP	1.41683	0.188
62DAP/57DAP	0.52827	0.871
68DAP/62DAP	0.77541	0.579
68DAP/14DAP	0.79244	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98318	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83086	0.286
Mature Green Tomato/Ripe Tomato	1.11839	0.948
Immature Eggplant/Mature Eggplant	1.44932	0.05
Ripe Pepper/Ripe Tomato	1.00137	1
Mature Eggplant/Ripe Tomato	6.34821	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.2041	N/A
12-2/M82	N/A	N/A
12-4/M82	1.55078	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	1.61295	N/A
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	0.95319	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.33049	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07729	0.277
IL2-6/WTpooled	0.9424	1
IL7-5/WTpooled	1.05364	N/A
IL7-3/WTpooled	0.92701	1
IL12-4/WTpooled	1.07371	0.839
IL1-4/WTpooled	0.92304	0.699
WT/WTpooled	1.116	0.999

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	0.87394	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00241	1
DC3000/delta hrp 6h	1.07517	1
DC3000/delta hrp 12h	1.09753	1
DC3000/delta hrp 24h	0.2917	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79477	0.183
DC3000 delta B/DC3000 delta AB	0.81949	0.075

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.44525	1
Exp 36h	1.30831	0.489
Exp 60h	1.45897	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9385	1
Var 0h	0.97558	1
Var 12h I row2-row1	0.76646	0.39
Var 12h NI row2-row1	0.98229	0.906
Var 36h I row2-row1	1.08095	1
Var 36h NI row2-row1	0.88192	0.522
Var 60h I row2-row1	1.00548	1
Var 60h NI row2-row1	0.96869	1
Time course 0hI-0hNI	1.02515	0.867
Time course 12hI-12hNI	0.92466	0.54
Time course 36hI-36hNI	1.03373	0.513
Time course 60hI-60hNI	1.21059	0.022

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)	1.15475	0.326
transgenic ySAMdc/azygous control (breaker)	0.98335	1
transgenic ySAMdc/azygous control (red)	0.999	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07248	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73587	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04742	1
Manapal/WT (break)	0.97616	1
Manapal/WT (red)	1.60506	0.222