Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.4.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13903	0.863
27DAP/17DAP	0.90077	0.758
39DAP/27DAP	0.90112	0.573
41DAP/39DAP	1.06692	0.649
42DAP/41DAP	0.93317	1
43DAP/42DAP	0.90612	0.815
47DAP/43DAP	0.89695	0.645
52DAP/47DAP	1.35247	0.605
57DAP/52DAP	1.22427	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8498	0.054
17DAP/reference	1.08871	0.476
27DAP/reference	1.33065	0.089
39DAP/reference	1.22837	0.06
41DAP/reference	1.19946	0.365
42DAP/reference	0.94995	0.242
43DAP/reference	1.01924	0.866
47DAP/reference	0.99284	0.636
52DAP/reference	1.09588	0.912
57DAP/reference	1.01384	0.876

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75258	0.07
27DAP/17DAP	1.07106	0.968
39DAP/27DAP	0.97121	0.812
41DAP/39DAP	0.92842	0.696
42DAP/41DAP	1.02336	1
43DAP/42DAP	0.93538	0.597
47DAP/43DAP	0.93611	0.543
52DAP/47DAP	1.0284	0.956
57DAP/52DAP	0.98624	0.813
57DAP/7DAP	0.80789	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95881	0.402
17DAP/reference	0.93855	0.253
27DAP/reference	0.9033	0.039
39DAP/reference	0.96116	0.474
41DAP/reference	1.04249	0.678
42DAP/reference	1.33314	0.013
43DAP/reference	1.10315	0.974
47DAP/reference	0.86878	0.066
52DAP/reference	1.20098	0.086
57DAP/reference	0.86997	0.08

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05386	0.863
17DAP/reference	0.9586	0.561
27DAP/reference	1.12993	0.221
39DAP/reference	1.07974	0.436
41DAP/reference	0.93475	0.357
42DAP/reference	1.1016	0.445
43DAP/reference	1.47178	0.15
47DAP/reference	1.01359	1
52DAP/reference	1.10965	0.279
57DAP/reference	1.03523	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92017	0.249
17DAP/reference	0.93451	0.477
27DAP/reference	0.99997	0.805
39DAP/reference	0.95254	0.271
41DAP/reference	1.1272	0.455
42DAP/reference	1.16966	0.3
43DAP/reference	1.05461	0.721
47DAP/reference	0.94462	0.315
52DAP/reference	0.77827	0.119
57DAP/reference	1.22545	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10711	0.966
26DAP/20DAP	1.76875	0.113
34DAP/26DAP	0.87775	0.448
51DAP/34DAP	0.86383	0.624
52DAP/51DAP	1.07091	0.616
53DAP/52DAP	0.9367	0.811
55DAP/53DAP	1.00856	0.964
57DAP/55DAP	1.04155	0.841
62DAP/57DAP	0.88539	0.088
68DAP/62DAP	1.64189	0.242
68DAP/14DAP	1.34439	0.049

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30256	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.43379	0.059
Mature Green Tomato/Ripe Tomato	1.43402	0.166
Immature Eggplant/Mature Eggplant	1.55896	0.069
Ripe Pepper/Ripe Tomato	1.51403	1
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	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
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	0.98928	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82051	0.418
IL12-4/WTpooled	0.90806	1
IL1-4/WTpooled	0.86886
WT/WTpooled	1.09489	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	1.00536	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94642	1
DC3000/delta hrp 6h	0.82165	0.872
DC3000/delta hrp 12h	0.99493	1
DC3000/delta hrp 24h	0.83461	0.058

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	1.12075	0.315

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94741	0.328
Exp 36h	1.1134	1
Exp 60h	0.97051	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.16928	0.294
transgenic ySAMdc/azygous control (breaker)	0.97118	0.173
transgenic ySAMdc/azygous control (red)	1.18439	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99031	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9324	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95448	1
Manapal/WT (break)	1.27865	1
Manapal/WT (red)	0.88123	0.36