Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.13.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04103	0.947
27DAP/17DAP	1.17205	0.849
39DAP/27DAP	0.97913	0.749
41DAP/39DAP	1.02056	0.938
42DAP/41DAP	1.08789	0.916
43DAP/42DAP	0.9265	0.867
47DAP/43DAP	0.9547	0.825
52DAP/47DAP	1.03134	0.973
57DAP/52DAP	1.24547	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76081	0.05
17DAP/reference	0.70183	0.007
27DAP/reference	1.03707	0.831
39DAP/reference	0.80201	0.027
41DAP/reference	0.63154	0.008
42DAP/reference	0.82883	0.013
43DAP/reference	0.91129	0.155
47DAP/reference	0.92802	0.242
52DAP/reference	1.15186	0.548
57DAP/reference	1.31951	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92406	0.289
27DAP/17DAP	0.92791	0.614
39DAP/27DAP	1.19125	0.378
41DAP/39DAP	0.95998	0.861
42DAP/41DAP	1.17978	0.102
43DAP/42DAP	1.02473	0.699
47DAP/43DAP	0.92565	0.559
52DAP/47DAP	0.77622	0.109
57DAP/52DAP	0.76989	0.169
57DAP/7DAP	0.97606	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11165	0.545
17DAP/reference	0.91424	0.167
27DAP/reference	0.90952	0.109
39DAP/reference	0.96018	0.411
41DAP/reference	0.95947	0.431
42DAP/reference	0.97132	0.436
43DAP/reference	1.01058	1
47DAP/reference	1.0414	1
52DAP/reference	0.91166	0.15
57DAP/reference	0.87617	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96408	0.548
17DAP/reference	0.67194	0.005
27DAP/reference	0.80758	0.069
39DAP/reference	0.93838	0.214
41DAP/reference	0.9578	0.34
42DAP/reference	0.8807	0.073
43DAP/reference	0.72914	0.02
47DAP/reference	0.82349	0.031
52DAP/reference	0.81955	0.018
57DAP/reference	0.66655	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03232	1
17DAP/reference	0.8175	0.125
27DAP/reference	0.93603	0.218
39DAP/reference	0.97052	0.393
41DAP/reference	0.79865	0.05
42DAP/reference	0.90944	0.287
43DAP/reference	0.90065	0.179
47DAP/reference	0.81935	0.016
52DAP/reference	1.03421	0.813
57DAP/reference	1.3242	0.16

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03811	1
26DAP/20DAP	0.96549	1
34DAP/26DAP	1.20094	0.304
51DAP/34DAP	1.19036	0.115
52DAP/51DAP	0.9041	1
53DAP/52DAP	0.90953	0.631
55DAP/53DAP	0.73298	0.027
57DAP/55DAP	1.24097	0.222
62DAP/57DAP	1.06486	1
68DAP/62DAP	1.41059	0.5
68DAP/14DAP	2.42254	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.6432	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.48142	0.109
Mature Green Tomato/Ripe Tomato	1.32927	0.299
Immature Eggplant/Mature Eggplant	2.33381	0.05
Ripe Pepper/Ripe Tomato	1.12577
Mature Eggplant/Ripe Tomato	0.71455	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88669	0.56
1-1-2/M82	1.05585	1
12-2/M82	0.98703	1
12-4/M82	0.69727	0.272
1-3/M82	1.09623	0.479
2-1-1/M82	0.83946	0.465
2-1/M82	1.02984
2-6/M82	0.81	0.501
3-2/M82	1.05625	0.84
4-1-1/M82	1.04725	1
4-1/M82	0.8442	1
4-3-2/M82	0.92604	1
4-3/M82	1.09012	1
5-3/M82	0.80999	1
6-2/M82	0.85027	1
6-3/M82	0.94252	1
7-1/M82	0.98603
7-2/M82	N/A	N/A
9-3-2/M82	0.90867	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9427	1
IL7-5/WTpooled	0.51022
IL7-3/WTpooled	0.96752	1
IL12-4/WTpooled	1.05348	0.553
IL1-4/WTpooled	1.05869	1
WT/WTpooled	1.02215	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	1.0131	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93279	1
DC3000/delta hrp 6h	1.04711	1
DC3000/delta hrp 12h	0.9792	1
DC3000/delta hrp 24h	1.09699	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.3564	0.094
DC3000 delta B/DC3000 delta AB	1.18486	0.327

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19333	1
Exp 36h	0.99339	1
Exp 60h	1.26457	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99293	1
Var 0h	2.08217	0.782
Var 12h I row2-row1	1.18545	0.216
Var 12h NI row2-row1	1.15375	0.34
Var 36h I row2-row1	0.90423	1
Var 36h NI row2-row1	0.79869	0.522
Var 60h I row2-row1	0.98497	1
Var 60h NI row2-row1	0.8406	0.297
Time course 0hI-0hNI	0.99499	1
Time course 12hI-12hNI	1.58875	0.005
Time course 36hI-36hNI	2.00277	0.004
Time course 60hI-60hNI	2.03146	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)	1.11168	0.326
transgenic ySAMdc/azygous control (breaker)	0.81421	0.173
transgenic ySAMdc/azygous control (red)	0.70442	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94506	0.09

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.33295	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89521	0.172
Manapal/WT (break)	0.83699	0.333
Manapal/WT (red)	0.68602	0.181