Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.14.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78944	0.2
27DAP/17DAP	0.80206	0.494
39DAP/27DAP	1.46348	0.212
41DAP/39DAP	1.10907	0.78
42DAP/41DAP	0.81579	0.774
43DAP/42DAP	1.00484	0.937
47DAP/43DAP	1.53486	0.239
52DAP/47DAP	1.23266	0.601
57DAP/52DAP	1.27741	0.55

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26123	0.071
17DAP/reference	0.90681	0.12
27DAP/reference	1.00427	1
39DAP/reference	0.88376	0.044
41DAP/reference	0.81732	0.039
42DAP/reference	0.87807	0.007
43DAP/reference	0.89256	0.043
47DAP/reference	0.90974	0.09
52DAP/reference	1.21609	0.272
57DAP/reference	1.12069	0.122

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77106	0.057
27DAP/17DAP	1.05908	0.912
39DAP/27DAP	0.93919	0.54
41DAP/39DAP	1.01351	1
42DAP/41DAP	1.15225	0.273
43DAP/42DAP	0.83517	0.121
47DAP/43DAP	1.08556	0.812
52DAP/47DAP	1.0509	0.826
57DAP/52DAP	0.91427	0.415
57DAP/7DAP	0.92476	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30239	0.055
17DAP/reference	1.06781	0.269
27DAP/reference	1.08949	0.301
39DAP/reference	1.19277	0.053
41DAP/reference	0.92184	0.184
42DAP/reference	0.94677	0.275
43DAP/reference	0.94811	0.279
47DAP/reference	0.9823	0.671
52DAP/reference	0.89232	0.072
57DAP/reference	0.95614	0.26

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05593	0.732
17DAP/reference	0.97584	0.561
27DAP/reference	1.16318	0.297
39DAP/reference	1.22165	0.309
41DAP/reference	1.11486	0.344
42DAP/reference	0.98789	0.594
43DAP/reference	0.90294	0.298
47DAP/reference	0.81796	0.021
52DAP/reference	1.09108	0.528
57DAP/reference	0.8545	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14148	0.031
17DAP/reference	1.02816	0.932
27DAP/reference	0.86801	0.119
39DAP/reference	0.92458	0.222
41DAP/reference	0.96921	0.512
42DAP/reference	0.96729	0.552
43DAP/reference	1.07316	0.734
47DAP/reference	0.79902	0.01
52DAP/reference	0.7798	0.084
57DAP/reference	1.32179	0.324

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84646	1
26DAP/20DAP	0.89704	0.512
34DAP/26DAP	0.9767	0.945
51DAP/34DAP	0.97507	0.816
52DAP/51DAP	1.04234	0.836
53DAP/52DAP	1.06841	0.783
55DAP/53DAP	1.15117	0.312
57DAP/55DAP	0.89283	0.499
62DAP/57DAP	0.54917	0.005
68DAP/62DAP	1.08921	1
68DAP/14DAP	1.03163	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35649	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9447	0.618
Mature Green Tomato/Ripe Tomato	3.63653	0.016
Immature Eggplant/Mature Eggplant	1.49056	0.05
Ripe Pepper/Ripe Tomato	3.18766	0.256
Mature Eggplant/Ripe Tomato	3.96541	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.77362	0.958
12-2/M82	N/A	N/A
12-4/M82	0.96187	1
1-3/M82	N/A	N/A
2-1-1/M82	1.08609
2-1/M82	N/A	N/A
2-6/M82	1.16325	1
3-2/M82	1.15177
4-1-1/M82	N/A	N/A
4-1/M82	1.32632
4-3-2/M82	0.91124
4-3/M82	1.04174	1
5-3/M82	1.13203	1
6-2/M82	0.91651
6-3/M82	N/A	N/A
7-1/M82	0.90548
7-2/M82	1.10353	0.385
9-3-2/M82	1.09435

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.47654	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.18354	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.14647	0.839
IL1-4/WTpooled	1.03148	1
WT/WTpooled	0.92892	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	1.10254	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00942	1
DC3000/delta hrp 6h	1.14267	1
DC3000/delta hrp 12h	0.65613	1
DC3000/delta hrp 24h	2.87236	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99014	1
DC3000 delta B/DC3000 delta AB	1.03701	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06116	1
Exp 36h	0.7877	0.321
Exp 60h	0.7631	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01843	1
Var 0h	1.04485	1
Var 12h I row2-row1	1.03885	0.736
Var 12h NI row2-row1	0.82876	0.627
Var 36h I row2-row1	1.0022	1
Var 36h NI row2-row1	0.97365	0.706
Var 60h I row2-row1	0.84867	0.582
Var 60h NI row2-row1	0.9868	1
Time course 0hI-0hNI	0.95644	0.649
Time course 12hI-12hNI	0.90232	0.142
Time course 36hI-36hNI	0.99179	0.68
Time course 60hI-60hNI	0.70997	0.005

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)	1.022	0.921
transgenic ySAMdc/azygous control (breaker)	0.85405	0.251
transgenic ySAMdc/azygous control (red)	0.90209	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03518	0.372

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12362	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17958	0.307
Manapal/WT (break)	1.05585	0.381
Manapal/WT (red)	1.0473	0.413