Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.18.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10932	0.827
27DAP/17DAP	0.90979	0.766
39DAP/27DAP	2.13386	0.049
41DAP/39DAP	1.15193	0.806
42DAP/41DAP	1.01833	1
43DAP/42DAP	1.38108	0.625
47DAP/43DAP	1.5475	0.668
52DAP/47DAP	0.82209	0.55
57DAP/52DAP	1.28617	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91844	0.128
17DAP/reference	0.88569	0.074
27DAP/reference	1.0234	0.863
39DAP/reference	1.03942	0.557
41DAP/reference	0.93009	0.201
42DAP/reference	1.06474	0.264
43DAP/reference	0.88117	0.071
47DAP/reference	1.05179	0.295
52DAP/reference	0.97337	0.427
57DAP/reference	1.00652	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1651	0.208
27DAP/17DAP	1.03574	0.98
39DAP/27DAP	1.26691	0.429
41DAP/39DAP	0.82774	0.169
42DAP/41DAP	1.12633	0.514
43DAP/42DAP	0.92906	0.431
47DAP/43DAP	1.03906	0.889
52DAP/47DAP	0.96676	0.886
57DAP/52DAP	0.93099	0.555
57DAP/7DAP	1.08168	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92033	0.246
17DAP/reference	1.32388	0.045
27DAP/reference	1.19698	0.018
39DAP/reference	1.32124	0.007
41DAP/reference	1.17728	0.121
42DAP/reference	1.44096	0.014
43DAP/reference	1.44639	0.006
47DAP/reference	1.27331	0.285
52DAP/reference	1.4646	0.034
57DAP/reference	1.43164	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91524	0.157
17DAP/reference	1.07056	0.294
27DAP/reference	1.04959	0.847
39DAP/reference	1.14428	0.175
41DAP/reference	0.86538	0.078
42DAP/reference	0.90235	0.15
43DAP/reference	1.09445	0.362
47DAP/reference	1.01729	0.89
52DAP/reference	0.97305	0.469
57DAP/reference	1.12475	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01344	1
17DAP/reference	1.09126	0.631
27DAP/reference	1.2833	0.03
39DAP/reference	1.38211	0.012
41DAP/reference	1.27151	0.015
42DAP/reference	1.31647	0.051
43DAP/reference	1.03279	1
47DAP/reference	1.02313	0.966
52DAP/reference	1.03441	1
57DAP/reference	1.12494	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16604	0.966
26DAP/20DAP	0.91826	1
34DAP/26DAP	1.32765	0.304
51DAP/34DAP	0.96499	0.835
52DAP/51DAP	1.19729	0.606
53DAP/52DAP	1.20531	0.643
55DAP/53DAP	1.01506	1
57DAP/55DAP	1.03801	0.955
62DAP/57DAP	0.96387	0.994
68DAP/62DAP	1.31333	0.778
68DAP/14DAP	0.96186	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.96524	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.4374	0.058
Mature Green Tomato/Ripe Tomato	0.258
Immature Eggplant/Mature Eggplant	0.95718	0.808
Ripe Pepper/Ripe Tomato	0.65505	0.293
Mature Eggplant/Ripe Tomato	1.06161	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05726	1
1-1-2/M82	1.088	1
12-2/M82	1.03547	1
12-4/M82	0.94455	1
1-3/M82	0.86866	0.501
2-1-1/M82	0.87593	0.465
2-1/M82	0.89801
2-6/M82	1.05999	0.505
3-2/M82	1.3158
4-1-1/M82	0.99548	1
4-1/M82	1.40456
4-3-2/M82	0.81691
4-3/M82	1.07549	1
5-3/M82	1.06838	1
6-2/M82	0.84615	1
6-3/M82	1.0576	1
7-1/M82	0.98205
7-2/M82	1.01808	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.16004
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	1.14762	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18356	0.758
DC3000/delta hrp 6h	1.13477	1
DC3000/delta hrp 12h	0.97914	1
DC3000/delta hrp 24h	0.9313	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11638	0.598
DC3000 delta B/DC3000 delta AB	1.62999	0.288

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97657	1
Exp 36h	1.00969	1
Exp 60h	1.17679	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01386	1
Var 0h	1.09004	1
Var 12h I row2-row1	1.06628	0.58
Var 12h NI row2-row1	1.00406	1
Var 36h I row2-row1	1.16192	0.601
Var 36h NI row2-row1	0.71245	0.549
Var 60h I row2-row1	1.00995	1
Var 60h NI row2-row1	0.83126	0.572
Time course 0hI-0hNI	1.09006	0.413
Time course 12hI-12hNI	1.07512	0.201
Time course 36hI-36hNI	1.11739	0.08
Time course 60hI-60hNI	2.0987	0.008

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)	0.90601	0.314
transgenic ySAMdc/azygous control (breaker)	1.05095	1
transgenic ySAMdc/azygous control (red)	1.04741	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01881	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.3453	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72243	1
Manapal/WT (break)	0.84291	1
Manapal/WT (red)	0.83713	0.188