Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9739	0.76
27DAP/17DAP	1.07974	0.88
39DAP/27DAP	0.73799	0.327
41DAP/39DAP	1.25541	0.217
42DAP/41DAP	1.05978	0.997
43DAP/42DAP	1.03175	1
47DAP/43DAP	1.04346	0.979
52DAP/47DAP	1.05109	0.969
57DAP/52DAP	1.04988	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02178	0.872
17DAP/reference	0.96672	0.503
27DAP/reference	0.98139	0.683
39DAP/reference	1.05617	0.249
41DAP/reference	0.9979	1
42DAP/reference	0.97163	0.182
43DAP/reference	0.99518	0.861
47DAP/reference	0.96833	0.174
52DAP/reference	0.99025	0.654
57DAP/reference	1.00693	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99564	0.847
27DAP/17DAP	1.02774	0.9
39DAP/27DAP	1.01339	0.751
41DAP/39DAP	1.0875	0.294
42DAP/41DAP	0.96748	0.67
43DAP/42DAP	0.96614	0.246
47DAP/43DAP	1.01491	0.906
52DAP/47DAP	0.99092	0.93
57DAP/52DAP	1.03645	0.772
57DAP/7DAP	1.01442	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95679	0.108
17DAP/reference	0.97457	0.295
27DAP/reference	1.03414	0.371
39DAP/reference	1.01417	0.297
41DAP/reference	1.0436	0.46
42DAP/reference	1.01588	0.889
43DAP/reference	0.95038	0.079
47DAP/reference	0.87821	0.066
52DAP/reference	0.96238	0.363
57DAP/reference	0.93284	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98938	0.831
17DAP/reference	0.91334	0.17
27DAP/reference	0.96119	0.22
39DAP/reference	0.98999	0.569
41DAP/reference	0.94307	0.299
42DAP/reference	1.01489	1
43DAP/reference	0.99642	0.814
47DAP/reference	1.028	0.572
52DAP/reference	0.92716	0.037
57DAP/reference	0.94475	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.948	0.335
17DAP/reference	0.96943	0.286
27DAP/reference	1.00082	1
39DAP/reference	1.0275	0.496
41DAP/reference	1.00516	1
42DAP/reference	0.94404	0.108
43DAP/reference	0.98309	0.545
47DAP/reference	0.98247	0.478
52DAP/reference	1.03935	0.657
57DAP/reference	0.86633	0.036

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01703	0.966
26DAP/20DAP	1.00616	1
34DAP/26DAP	0.9873	0.972
51DAP/34DAP	1.00707	0.962
52DAP/51DAP	1.05121	0.51
53DAP/52DAP	1.00923	0.961
55DAP/53DAP	0.97884	0.784
57DAP/55DAP	0.94752	0.783
62DAP/57DAP	1.08268	0.569
68DAP/62DAP	1.12977	0.398
68DAP/14DAP	1.06108	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98548	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.42261	0.176
Mature Green Tomato/Ripe Tomato	0.80779
Immature Eggplant/Mature Eggplant	1.07767	0.417
Ripe Pepper/Ripe Tomato	0.19016	0.293
Mature Eggplant/Ripe Tomato	0.28444	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0114	1
1-1-2/M82	1.0151	1
12-2/M82	0.9641	0.955
12-4/M82	0.96536	1
1-3/M82	0.92893	0.441
2-1-1/M82	1.11047	0.764
2-1/M82	1.17101	1
2-6/M82	0.96953	1
3-2/M82	1.03365	0.549
4-1-1/M82	1.03665	1
4-1/M82	1.00624	1
4-3-2/M82	0.94311	1
4-3/M82	0.95574	1
5-3/M82	0.99621	1
6-2/M82	0.98117	1
6-3/M82	1.06325	1
7-1/M82	0.90032	0.803
7-2/M82	0.95167	0.796
9-3-2/M82	0.94627	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.197	0.277
IL2-6/WTpooled	0.94409	0.473
IL7-5/WTpooled	0.98559	1
IL7-3/WTpooled	0.98881	1
IL12-4/WTpooled	1.01797	0.557
IL1-4/WTpooled	0.98536	1
WT/WTpooled	0.91755	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	1.14599	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06984	0.914
DC3000/delta hrp 6h	0.76544	0.95
DC3000/delta hrp 12h	0.94793	1
DC3000/delta hrp 24h	1.11168	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03692	0.333
DC3000 delta B/DC3000 delta AB	0.95547	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98929	1
Var 0h	0.45992	1
Var 12h I row2-row1	1.09904	0.283
Var 12h NI row2-row1	1.00871	1
Var 36h I row2-row1	0.95575	1
Var 36h NI row2-row1	0.94204	0.645
Var 60h I row2-row1	1.08658	1
Var 60h NI row2-row1	1.05388	1
Time course 0hI-0hNI	1.06066	0.852
Time course 12hI-12hNI	1.06115	0.747
Time course 36hI-36hNI	0.99355	0.718
Time course 60hI-60hNI	1.0741	0.187

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)	1.20306	0.326
transgenic ySAMdc/azygous control (breaker)	1.33765	0.248
transgenic ySAMdc/azygous control (red)	1.40335	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98487	0.22

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.67447	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.50729	1
Manapal/WT (break)	0.89444	0.299
Manapal/WT (red)	0.78122	0.181