Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03277	0.947
27DAP/17DAP	1.08638	0.872
39DAP/27DAP	0.93924	0.62
41DAP/39DAP	1.62414	0.386
42DAP/41DAP	0.95785	1
43DAP/42DAP	0.93089	0.822
47DAP/43DAP	0.94506	0.788
52DAP/47DAP	1.37165	0.325
57DAP/52DAP	1.01319	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09286	0.126
17DAP/reference	0.98388	0.597
27DAP/reference	1.00139	1
39DAP/reference	1.04197	0.191
41DAP/reference	1.03829	0.624
42DAP/reference	1.07709	0.003
43DAP/reference	1.02342	0.617
47DAP/reference	1.06236	0.078
52DAP/reference	1.17309	0.015
57DAP/reference	1.09191	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0392	0.63
27DAP/17DAP	1.02007	0.932
39DAP/27DAP	1.0155	0.751
41DAP/39DAP	1.06033	0.393
42DAP/41DAP	0.95199	0.62
43DAP/42DAP	0.97437	0.641
47DAP/43DAP	0.95184	0.75
52DAP/47DAP	1.00385	1
57DAP/52DAP	1.05969	0.632
57DAP/7DAP	1.03836	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90301	0.082
17DAP/reference	0.94247	0.039
27DAP/reference	0.94438	0.014
39DAP/reference	0.96666	0.126
41DAP/reference	1.03487	0.539
42DAP/reference	1.03967	0.233
43DAP/reference	0.99153	0.555
47DAP/reference	1.01046	1
52DAP/reference	1.00005	0.802
57DAP/reference	0.99188	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00356	1
17DAP/reference	1.09095	0.124
27DAP/reference	1.19207	0.128
39DAP/reference	1.14933	0.112
41DAP/reference	1.10547	0.335
42DAP/reference	1.08997	0.433
43DAP/reference	1.11503	0.297
47DAP/reference	1.04147	0.556
52DAP/reference	1.03039	0.279
57DAP/reference	1.0923	0.083

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90319	0.047
17DAP/reference	1.00176	1
27DAP/reference	0.96602	0.092
39DAP/reference	0.94361	0.014
41DAP/reference	1.01077	1
42DAP/reference	0.93956	0.134
43DAP/reference	0.99399	0.712
47DAP/reference	0.93254	0.139
52DAP/reference	0.89407	0.163
57DAP/reference	1.06178	0.41

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98317	1
26DAP/20DAP	1.02361	0.953
34DAP/26DAP	0.98411	0.97
51DAP/34DAP	0.94167	0.631
52DAP/51DAP	1.02693	0.742
53DAP/52DAP	1.0291	0.83
55DAP/53DAP	1.03243	0.722
57DAP/55DAP	1.02567	0.915
62DAP/57DAP	1.00219	1
68DAP/62DAP	0.72916	0.195
68DAP/14DAP	0.95494	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94405	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.91173	0.481
Mature Green Tomato/Ripe Tomato	0.93987	0.522
Immature Eggplant/Mature Eggplant	1.35184	0.05
Ripe Pepper/Ripe Tomato	0.81158	1
Mature Eggplant/Ripe Tomato	0.46554	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01823	1
1-1-2/M82	0.94358	0.754
12-2/M82	0.90018
12-4/M82	0.94055	1
1-3/M82	0.867	0.501
2-1-1/M82	0.93136
2-1/M82	1.89464
2-6/M82	1.05091	0.594
3-2/M82	1.06913
4-1-1/M82	0.97447	1
4-1/M82	0.84843
4-3-2/M82	0.83663	1
4-3/M82	0.75362	1
5-3/M82	1.06316	1
6-2/M82	1.0627	1
6-3/M82	1.26656
7-1/M82	0.91545	1
7-2/M82	1.00911	1
9-3-2/M82	1.0123	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.25297	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.86764	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.8652
WT/WTpooled	N/A	N/A

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	1.10693	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95583	1
DC3000/delta hrp 6h	1.17546	1
DC3000/delta hrp 12h	1.02433	1
DC3000/delta hrp 24h	0.98929	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2033	0.042
DC3000 delta B/DC3000 delta AB	1.11171	0.332

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23312	1
Exp 36h	1.03899	1
Exp 60h	0.9875	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97068	1
Var 0h	1.07331	0.936
Var 12h I row2-row1	1.14662	0.235
Var 12h NI row2-row1	0.97025	0.906
Var 36h I row2-row1	0.87016	1
Var 36h NI row2-row1	1.00373	1
Var 60h I row2-row1	1.06254	1
Var 60h NI row2-row1	1.10301	0.904
Time course 0hI-0hNI	1.08505	0.537
Time course 12hI-12hNI	1.0273	0.786
Time course 36hI-36hNI	1.0837	0.023
Time course 60hI-60hNI	1.37923	0.015

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)	0.98091	0.789
transgenic ySAMdc/azygous control (breaker)	0.97456	0.251
transgenic ySAMdc/azygous control (red)	0.93453	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9786	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92044	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8754	1
Manapal/WT (break)	0.95476	1
Manapal/WT (red)	0.88526	0.503