Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05149	1
27DAP/17DAP	0.85214	0.63
39DAP/27DAP	0.68549	0.286
41DAP/39DAP	0.83652	0.453
42DAP/41DAP	0.56871	0.397
43DAP/42DAP	0.89979	0.741
47DAP/43DAP	0.61528	0.074
52DAP/47DAP	0.99505	0.754
57DAP/52DAP	0.93452	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11348	0.17
17DAP/reference	1.02626	0.631
27DAP/reference	1.10999	0.125
39DAP/reference	1.11868	0.174
41DAP/reference	1.08428	0.338
42DAP/reference	0.94188	0.103
43DAP/reference	1.02436	0.705
47DAP/reference	0.98078	0.392
52DAP/reference	1.14732	0.026
57DAP/reference	1.06499	0.853

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74173	0.07
27DAP/17DAP	1.44802	0.041
39DAP/27DAP	0.57507	0.046
41DAP/39DAP	1.58029	0.355
42DAP/41DAP	0.56425	0.008
43DAP/42DAP	1.00265	1
47DAP/43DAP	0.83398	0.418
52DAP/47DAP	1.01696	0.962
57DAP/52DAP	1.13012	0.476
57DAP/7DAP	0.6362	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10364	0.691
17DAP/reference	1.22447	0.199
27DAP/reference	1.44692	0.012
39DAP/reference	1.05821	0.669
41DAP/reference	1.21176	0.191
42DAP/reference	0.93294	0.32
43DAP/reference	0.94373	0.334
47DAP/reference	0.99531	1
52DAP/reference	0.75031	0.014
57DAP/reference	0.90977	0.191

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0392	0.732
17DAP/reference	1.19681	0.083
27DAP/reference	1.13681	0.2
39DAP/reference	1.11438	0.233
41DAP/reference	1.11258	0.228
42DAP/reference	1.14048	0.185
43DAP/reference	1.33888	0.018
47DAP/reference	1.14976	0.046
52DAP/reference	1.11604	0.259
57DAP/reference	1.02247	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10588	0.176
17DAP/reference	1.32036	0.294
27DAP/reference	1.1504	0.271
39DAP/reference	1.0826	0.342
41DAP/reference	1.05331	0.605
42DAP/reference	0.92298	0.172
43DAP/reference	0.90255	0.267
47DAP/reference	1.11186	0.044
52DAP/reference	0.79657	0.186
57DAP/reference	1.07955	0.8

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19019	0.916
26DAP/20DAP	1.03166
34DAP/26DAP	1.71705
51DAP/34DAP	0.98116	0.917
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.26996	0.753
55DAP/53DAP	0.96119	0.746
57DAP/55DAP	1.06113	0.955
62DAP/57DAP	1.0508	0.935
68DAP/62DAP	1.17815	0.464
68DAP/14DAP	1.14486	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79982	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.2993	0.014
Immature Eggplant/Mature Eggplant	0.66177	0.064
Ripe Pepper/Ripe Tomato	0.83092
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	0.90312
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.88268	0.49
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.01284	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83839	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.97955	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.0822	1
IL1-4/WTpooled	0.92336	0.834
WT/WTpooled	1.04691

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	0.61458

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00669	1
DC3000/delta hrp 6h	0.94702	0.95
DC3000/delta hrp 12h	1.02476	1
DC3000/delta hrp 24h	0.9013	0.346

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	1.11824	1
Exp 36h	0.91871	0.539
Exp 60h	1.024	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01756	1
Var 0h	0.85668	0.933
Var 12h I row2-row1	0.84844	0.418
Var 12h NI row2-row1	1.22783	1
Var 36h I row2-row1	0.89973	1
Var 36h NI row2-row1	0.48184	1
Var 60h I row2-row1	1.156
Var 60h NI row2-row1	1.12753
Time course 0hI-0hNI	1.06764	0.662
Time course 12hI-12hNI	0.78866	0.101
Time course 36hI-36hNI	0.53451	0.023
Time course 60hI-60hNI	0.3604	0.006

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)	0.84716	0.286
transgenic ySAMdc/azygous control (breaker)	1.04131	1
transgenic ySAMdc/azygous control (red)	0.98488	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01319	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16861	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.54427	0.307
Manapal/WT (break)	1.03943	1
Manapal/WT (red)	0.73749	0.181