Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.3.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02692	0.938
27DAP/17DAP	0.7883	0.35
39DAP/27DAP	1.0105	0.733
41DAP/39DAP	1.18125	0.753
42DAP/41DAP	0.81868	0.774
43DAP/42DAP	1.02385	0.937
47DAP/43DAP	0.86135	0.565
52DAP/47DAP	1.20626	0.791
57DAP/52DAP	1.13328	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06427	0.662
17DAP/reference	0.72052	0.021
27DAP/reference	0.77814	0.014
39DAP/reference	0.68657	0.012
41DAP/reference	0.67694	0.008
42DAP/reference	0.96354	0.176
43DAP/reference	0.6241
47DAP/reference	0.84341	0.003
52DAP/reference	0.76847	0.015
57DAP/reference	0.70344

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04	1
27DAP/17DAP	0.91272	0.614
39DAP/27DAP	0.97104	0.812
41DAP/39DAP	1.12747	0.79
42DAP/41DAP	1.16635	0.872
43DAP/42DAP	1.0489	1
47DAP/43DAP	1.02262	1
52DAP/47DAP	4.21479	0.224
57DAP/52DAP	0.89902	0.337
57DAP/7DAP	0.87439	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8962	0.168
17DAP/reference	0.88343	0.094
27DAP/reference	0.94028	0.146
39DAP/reference	0.75345	0.023
41DAP/reference	0.81184	0.043
42DAP/reference	0.76814	0.023
43DAP/reference	0.83268	0.046
47DAP/reference	0.92516	0.504
52DAP/reference	0.7663	0.019
57DAP/reference	0.74038	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16382	0.246
17DAP/reference	1.11686	0.104
27DAP/reference	1.14213	0.244
39DAP/reference	0.99554	0.642
41DAP/reference	1.06927	0.491
42DAP/reference	1.09866	0.267
43DAP/reference	1.10213	0.704
47DAP/reference	0.96493	0.446
52DAP/reference	0.92347	0.239
57DAP/reference	0.96627	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01837	0.709
17DAP/reference	0.96623	0.579
27DAP/reference	0.87782	0.133
39DAP/reference	0.85097	0.092
41DAP/reference	0.87158	0.119
42DAP/reference	0.97363	0.671
43DAP/reference	0.96095	0.484
47DAP/reference	0.93298	0.296
52DAP/reference	1.07657	0.526
57DAP/reference	1.55496	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13465	0.966
26DAP/20DAP	0.87242	0.512
34DAP/26DAP	0.79179	0.311
51DAP/34DAP	1.03388	0.978
52DAP/51DAP	1.09612	0.596
53DAP/52DAP	0.93581	0.783
55DAP/53DAP	1.13517	0.415
57DAP/55DAP	1.021	1
62DAP/57DAP	1.53561	0.303
68DAP/62DAP	1.2114	0.729
68DAP/14DAP	1.44356	0.103

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77345	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.91965	0.517
Mature Green Tomato/Ripe Tomato	1.58426	0.015
Immature Eggplant/Mature Eggplant	0.81335	0.096
Ripe Pepper/Ripe Tomato	1.37557	0.258
Mature Eggplant/Ripe Tomato	1.1693	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07465	0.742
1-1-2/M82	0.96755
12-2/M82	N/A	N/A
12-4/M82	1.00705	1
1-3/M82	0.84864	0.378
2-1-1/M82	1.10025	1
2-1/M82	N/A	N/A
2-6/M82	0.9226	0.501
3-2/M82	1.01559
4-1-1/M82	0.9026	1
4-1/M82	0.54277
4-3-2/M82	1.06028
4-3/M82	0.81521	0.72
5-3/M82	0.90531	1
6-2/M82	0.95146	1
6-3/M82	0.94692	1
7-1/M82	1.19455
7-2/M82	0.92315	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88185	0.321
IL2-6/WTpooled	1.04682	0.659
IL7-5/WTpooled	0.91547	1
IL7-3/WTpooled	0.83316	0.418
IL12-4/WTpooled	0.88525	1
IL1-4/WTpooled	0.88992	0.699
WT/WTpooled	1.03205	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	0.75138	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90574	1
DC3000/delta hrp 6h	1.06052	1
DC3000/delta hrp 12h	1.00418	1
DC3000/delta hrp 24h	0.78709	0.055

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	0.5569	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12081	1
Exp 36h	1.13496	1
Exp 60h	1.24538	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97577	1
Var 0h	1.13624	0.782
Var 12h I row2-row1	0.78793	0.418
Var 12h NI row2-row1	0.89511	0.546
Var 36h I row2-row1	0.91194	1
Var 36h NI row2-row1	1.09869	1
Var 60h I row2-row1	1.11857	0.523
Var 60h NI row2-row1	1.03091	0.904
Time course 0hI-0hNI	0.94321	0.618
Time course 12hI-12hNI	0.96568	0.6
Time course 36hI-36hNI	0.83638	0.023
Time course 60hI-60hNI	0.20416	0.005

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)	1.23644	0.272
transgenic ySAMdc/azygous control (breaker)	0.9122	0.49
transgenic ySAMdc/azygous control (red)	1.12539	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04875	0.119

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07937	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.7299	0.088
Manapal/WT (break)	1.07421	0.381
Manapal/WT (red)	1.26569	0.15