Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.1.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93949	0.627
27DAP/17DAP	1.10765	1
39DAP/27DAP	0.98786	0.782
41DAP/39DAP	1.34357	0.318
42DAP/41DAP	1.01305	1
43DAP/42DAP	0.9341	0.867
47DAP/43DAP	0.93525	0.76
52DAP/47DAP	1.18727	0.657
57DAP/52DAP	1.01093	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02921	0.71
17DAP/reference	1.05594	0.086
27DAP/reference	1.10064	0.073
39DAP/reference	1.04637	0.209
41DAP/reference	1.07529	0.145
42DAP/reference	1.03827	0.264
43DAP/reference	1.05685	0.547
47DAP/reference	1.09283	0.021
52DAP/reference	0.95276	0.267
57DAP/reference	0.91411	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15319	0.119
27DAP/17DAP	0.96268	0.782
39DAP/27DAP	0.97305	0.804
41DAP/39DAP	0.99083	0.997
42DAP/41DAP	1.0067	0.892
43DAP/42DAP	1.0533	0.324
47DAP/43DAP	1.01612	0.941
52DAP/47DAP	1.03857	0.826
57DAP/52DAP	0.93733	0.221
57DAP/7DAP	1.00097	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87878	0.082
17DAP/reference	0.87761	0.013
27DAP/reference	0.82702	0.01
39DAP/reference	0.84927	0.011
41DAP/reference	0.91756	0.194
42DAP/reference	0.7907	0.031
43DAP/reference	0.83775	0.026
47DAP/reference	1.36464	0.089
52DAP/reference	0.80139	0.012
57DAP/reference	0.82963	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00183	0.993
17DAP/reference	1.05789	0.375
27DAP/reference	1.13319	0.23
39DAP/reference	1.18183	0.2
41DAP/reference	1.0486	0.737
42DAP/reference	1.01462	1
43DAP/reference	1.08366	0.485
47DAP/reference	1.02132	0.695
52DAP/reference	1.09237	0.223
57DAP/reference	0.96619	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9011	0.214
17DAP/reference	0.94554	0.268
27DAP/reference	0.8898	0.14
39DAP/reference	0.88768	0.058
41DAP/reference	0.95134	0.209
42DAP/reference	0.94522	0.552
43DAP/reference	0.94227	0.237
47DAP/reference	1.24562	0.073
52DAP/reference	0.87157	0.247
57DAP/reference	1.22326	0.126

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04782	0.966
26DAP/20DAP	0.93296	0.112
34DAP/26DAP	1.13628	1
51DAP/34DAP	1.06409	0.402
52DAP/51DAP	0.90345	0.151
53DAP/52DAP	0.91436	0.35
55DAP/53DAP	0.9809	0.838
57DAP/55DAP	1.10552	0.694
62DAP/57DAP	1.07636	0.767
68DAP/62DAP	1.07003	0.878
68DAP/14DAP	0.98227	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23124	0.077

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.61729	0.14
Mature Green Tomato/Ripe Tomato	0.61728	0.024
Immature Eggplant/Mature Eggplant	1.00798	1
Ripe Pepper/Ripe Tomato	0.79518	0.224
Mature Eggplant/Ripe Tomato	0.59219	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20819	0.591
1-1-2/M82	0.95237	1
12-2/M82	1.05516	1
12-4/M82	1.08275	0.655
1-3/M82	0.96897	0.501
2-1-1/M82	1.1471	0.422
2-1/M82	1.22146
2-6/M82	1.1052	0.594
3-2/M82	0.99162	1
4-1-1/M82	1.02672	1
4-1/M82	1.09817	1
4-3-2/M82	0.97902	1
4-3/M82	1.15952	1
5-3/M82	0.93061	0.49
6-2/M82	1.10103	1
6-3/M82	0.88321	0.982
7-1/M82	0.96516
7-2/M82	1.09669	1
9-3-2/M82	1.08241	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.78464	0.243
IL2-6/WTpooled	1.27982
IL7-5/WTpooled	1.15186	1
IL7-3/WTpooled	1.57049
IL12-4/WTpooled	0.71552	0.478
IL1-4/WTpooled	1.04293	1
WT/WTpooled	0.92809	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	1.32591	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04033	0.921
DC3000/delta hrp 6h	1.06071	1
DC3000/delta hrp 12h	0.95972	1
DC3000/delta hrp 24h	1.01698	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.4282	0.208
DC3000 delta B/DC3000 delta AB	1.16176	0.256

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02376	1
Exp 36h	0.93216	0.406
Exp 60h	0.94331	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98629	1
Var 0h	0.9102	0.933
Var 12h I row2-row1	1.1808	0.283
Var 12h NI row2-row1	1.01724	1
Var 36h I row2-row1	1.11114	0.908
Var 36h NI row2-row1	0.94722	0.743
Var 60h I row2-row1	1.07204	1
Var 60h NI row2-row1	1.12311	0.904
Time course 0hI-0hNI	1.02715	0.867
Time course 12hI-12hNI	1.00201	1
Time course 36hI-36hNI	1.03874	0.881
Time course 60hI-60hNI	1.3289	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)	1.0435	0.455
transgenic ySAMdc/azygous control (breaker)	0.83369	0.173
transgenic ySAMdc/azygous control (red)	0.92947	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.21727	0.047

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8868	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.59378	0.172
Manapal/WT (break)	0.82789	0.333
Manapal/WT (red)	0.89781	0.315