Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.2.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01253	1
27DAP/17DAP	1.2721	0.833
39DAP/27DAP	1.0142	0.769
41DAP/39DAP	1.4176	0.122
42DAP/41DAP	1.08585	0.986
43DAP/42DAP	0.91991	0.829
47DAP/43DAP	0.93099	0.746
52DAP/47DAP	1.33033	0.453
57DAP/52DAP	1.01294	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97924	0.578
17DAP/reference	0.99869	1
27DAP/reference	0.97929	0.623
39DAP/reference	0.96904	0.437
41DAP/reference	0.99291	0.814
42DAP/reference	0.90045	0.03
43DAP/reference	1.02051	0.838
47DAP/reference	0.90706	0.016
52DAP/reference	0.92045	0.195
57DAP/reference	0.82712	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97142	0.595
27DAP/17DAP	1.02848	0.938
39DAP/27DAP	1.04345	0.659
41DAP/39DAP	1.04407	0.853
42DAP/41DAP	1.01827	0.947
43DAP/42DAP	1.0912	0.162
47DAP/43DAP	1.06186	0.678
52DAP/47DAP	1.00541	0.991
57DAP/52DAP	0.97806	0.691
57DAP/7DAP	1.08779	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83881	0.069
17DAP/reference	0.87678	0.014
27DAP/reference	0.77589	0.01
39DAP/reference	0.75753	0.073
41DAP/reference	0.84679	0.04
42DAP/reference	0.80678	0.018
43DAP/reference	0.76753	0.013
47DAP/reference	0.80386	0.05
52DAP/reference	0.74017	0.012
57DAP/reference	0.77537	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06598	0.43
17DAP/reference	1.01674	0.824
27DAP/reference	0.92172	0.212
39DAP/reference	0.86476	0.091
41DAP/reference	0.82438	0.012
42DAP/reference	0.84077	0.016
43DAP/reference	0.95496	0.394
47DAP/reference	0.85836	0.012
52DAP/reference	1.02254	0.747
57DAP/reference	1.08456	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85899	0.087
17DAP/reference	0.95366	0.488
27DAP/reference	0.86018	0.031
39DAP/reference	0.8384	0.01
41DAP/reference	0.86072	0.058
42DAP/reference	0.73233	0.016
43DAP/reference	0.76765	0.023
47DAP/reference	0.91209	0.174
52DAP/reference	0.75334	0.112
57DAP/reference	0.58133	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01859	0.966
26DAP/20DAP	0.87455	0.244
34DAP/26DAP	0.92318	0.519
51DAP/34DAP	1.05015	0.829
52DAP/51DAP	0.86904
53DAP/52DAP	0.94874	0.767
55DAP/53DAP	0.91807	0.577
57DAP/55DAP	1.10698	0.865
62DAP/57DAP	1.11221	0.678
68DAP/62DAP	1.03155	1
68DAP/14DAP	1.20553	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00243	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.38803
Mature Green Tomato/Ripe Tomato	0.63398	0.025
Immature Eggplant/Mature Eggplant	2.11541	0.061
Ripe Pepper/Ripe Tomato	0.22764	0.224
Mature Eggplant/Ripe Tomato	0.25967	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95572	0.944
1-1-2/M82	0.86133	1
12-2/M82	1.03913	1
12-4/M82	1.01604	1
1-3/M82	0.8997	0.378
2-1-1/M82	1.09617	1
2-1/M82	1.33072
2-6/M82	1.0376	0.695
3-2/M82	0.92107
4-1-1/M82	0.88403	1
4-1/M82	0.95268	1
4-3-2/M82	0.80625	0.698
4-3/M82	0.7821	0.72
5-3/M82	0.92888	1
6-2/M82	0.90488	1
6-3/M82	0.89902	1
7-1/M82	0.96355	1
7-2/M82	1.11346	1
9-3-2/M82	0.77476	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.38587	0.277
IL2-6/WTpooled	0.94957	1
IL7-5/WTpooled	0.82588	1
IL7-3/WTpooled	0.92352	1
IL12-4/WTpooled	1.21453	0.553
IL1-4/WTpooled	1.11075	1
WT/WTpooled	0.9998	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	0.98803	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02734	0.692
DC3000/delta hrp 6h	1.19771	0.777
DC3000/delta hrp 12h	1.14365	1
DC3000/delta hrp 24h	1.00604	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96847	0.882
DC3000 delta B/DC3000 delta AB	0.98055	0.849

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07925	1
Exp 36h	1.19676	1
Exp 60h	1.06556	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98692	1
Var 0h	1.00493	0.936
Var 12h I row2-row1	1.01366	0.795
Var 12h NI row2-row1	1.12002	1
Var 36h I row2-row1	0.9768	1
Var 36h NI row2-row1	1.01012	1
Var 60h I row2-row1	1.39183	0.562
Var 60h NI row2-row1	1.17697	0.904
Time course 0hI-0hNI	1.0291	0.833
Time course 12hI-12hNI	0.97897	0.836
Time course 36hI-36hNI	0.93871	0.179
Time course 60hI-60hNI	0.71745	0.006

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)	1.05743	0.408
transgenic ySAMdc/azygous control (breaker)	1.44813	0.172
transgenic ySAMdc/azygous control (red)	0.98537	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96706	0.143

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11494	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.48071	0.096
Manapal/WT (break)	0.96411	1
Manapal/WT (red)	1.29048	0.164