Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.3.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66599	0.131
27DAP/17DAP	1.15141	0.872
39DAP/27DAP	1.14033	0.899
41DAP/39DAP	0.71854	0.15
42DAP/41DAP	0.91723	1
43DAP/42DAP	0.98431	0.931
47DAP/43DAP	0.86716	0.568
52DAP/47DAP	1.41479	0.784
57DAP/52DAP	1.07326	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21405	0.544
17DAP/reference	1.20866	1
27DAP/reference	1.00217	0.923
39DAP/reference	0.86305	0.404
41DAP/reference	0.82254	0.267
42DAP/reference	1.89532	0.264
43DAP/reference	0.7208	0.08
47DAP/reference	1.08207
52DAP/reference	1.10951	0.912
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05622	0.797
27DAP/17DAP	0.88117	0.684
39DAP/27DAP	0.87528	0.536
41DAP/39DAP	1.42318	0.112
42DAP/41DAP	0.87946	0.279
43DAP/42DAP	0.88327	0.269
47DAP/43DAP	1.10931	0.758
52DAP/47DAP	1.25305	0.532
57DAP/52DAP	0.95829	0.732
57DAP/7DAP	0.82819	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95269	0.445
17DAP/reference	0.8682	0.025
27DAP/reference	0.89629	0.012
39DAP/reference	0.87697	0.02
41DAP/reference	1.00351	0.538
42DAP/reference	0.7489	0.01
43DAP/reference	0.86179	0.032
47DAP/reference	0.98758	1
52DAP/reference	0.77379	0.061
57DAP/reference	0.80304	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.61526	0.184
17DAP/reference	1.46627	0.143
27DAP/reference	0.93494	0.393
39DAP/reference	0.76753	0.314
41DAP/reference	N/A	N/A
42DAP/reference	2.46811	0.094
43DAP/reference	1.24987	0.23
47DAP/reference	1.10816	0.675
52DAP/reference	1.46147	0.368
57DAP/reference	1.03513	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04149	0.984
17DAP/reference	1.17652	0.538
27DAP/reference	0.8857	0.073
39DAP/reference	0.90305	0.122
41DAP/reference	0.99342	0.754
42DAP/reference	1.01281	1
43DAP/reference	0.95951	0.398
47DAP/reference	1.22768	0.11
52DAP/reference	0.90951	0.342
57DAP/reference	1.09911	0.401

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98453	1
26DAP/20DAP	0.83782	0.512
34DAP/26DAP	1.23279	1
51DAP/34DAP	1.07841	0.911
52DAP/51DAP	1.20648	0.404
53DAP/52DAP	0.78276	0.131
55DAP/53DAP	0.93545	0.698
57DAP/55DAP	1.26237	0.947
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.71302
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75595	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	8.65892
Mature Eggplant/Ripe Tomato	28.6185	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.14826
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.9345
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02086	1
IL2-6/WTpooled	1.06229	1
IL7-5/WTpooled	1.04825	0.792
IL7-3/WTpooled	0.95603	1
IL12-4/WTpooled	0.95207	1
IL1-4/WTpooled	0.98363	1
WT/WTpooled	1.00948	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	0.87638	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87784	0.849
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.11787
DC3000/delta hrp 24h	0.64133	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0228	1
DC3000 delta B/DC3000 delta AB	0.86973	0.279

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	0.95554	1
Var 0h	1.16611	0.311
Var 12h I row2-row1	0.9021	0.77
Var 12h NI row2-row1	0.99347	1
Var 36h I row2-row1	1.20348	1
Var 36h NI row2-row1	0.93041	0.706
Var 60h I row2-row1	1.02028
Var 60h NI row2-row1	0.92213	0.977
Time course 0hI-0hNI	0.95476	0.721
Time course 12hI-12hNI	1.07225	0.313
Time course 36hI-36hNI	1.06698	0.147
Time course 60hI-60hNI	0.72187	0.015

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04158	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.85067	0.164