TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0443/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3435c/-	(cc=0.5662)	info on Rv3435c/-
Rv0572c/-	(cc=0.5626)	info on Rv0572c/-
Rv3077/-	(cc=0.532)	info on Rv3077/-
Rv0551c/fadD8	(cc=0.5279)	info on Rv0551c/fadD8
Rv2787/-	(cc=0.5235)	info on Rv2787/-
Rv3406/-	(cc=0.5187)	info on Rv3406/-
Rv0754/PE_PGRS11	(cc=0.4883)	info on Rv0754/PE_PGRS11
Rv2086/-	(cc=0.4875)	info on Rv2086/-
Rv0342/iniA	(cc=0.469)	info on Rv0342/iniA
Rv2679/echA15	(cc=0.4687)	info on Rv2679/echA15

Correlation of Rv0443/- with Rv3435c/-

Normalized LFCs for Rv0443/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0443/-	Rv3435c/-
Fe_supp_jason_reseq	-1.07	0.38
low_pH_jason_reseq	-0.992	-1.606
NO_jason_reseq	0.16	0.121
B6_jason_reseq	-0.502	0.311
MHCII_jason_reseq	0.258	0.701
Isoniazid02	-0.627	-1.359
Rifampicin4	0.227	-1.107
Ethambutol3	-0.689	-0.049
Meropenem3	-0.012	-1.004
Vancomycin16	-0.172	-0.939
Rv2680_day32	-0.776	-0.409
H37Rv_KO_MarP	0.395	0.488
hypoxia_3wks	-0.295	-0.542
hypoxia_6wks	-0.144	-1.071
glycerol	0.553	-0.881
cholesterol	0.29	0.151
AJ	0.158	0.121
Bibs02	0.087	-0.164
Bibs02c	0.562	0.385
BL6	0.1	-0.322
BL6a	0.175	-0.235
BXD01	0.004	-0.501
BXD010	0.329	-0.232
BXD011	-0.44	-0.345
BXD03	0.317	-0.232
BXD04	0.387	-0.519
BXD05	-0.138	-0.323
BXD06	-0.28	-0.683
BXD07	-0.296	-0.318
BXD08	-0.211	-0.516
BXD09	-0.376	-0.487
CAST	0.402	0.235
CCcont	0.14	-0.363
DS01	0.007	0.275
DS02	0.402	-0.339
DS04	0.526	0.174
DS0c	0.135	-0.03
GP01	0.036	0.041
GP02	1.148	0.585
GP0c	0.277	-0.572
NOD	1.097	1.434
NZO	0.22	0.721
PWK	0.372	0.361
H37Rv_KO_CtpC	0.201	0.034
H37Rv_KO_CtpD	-0.256	0.429
H37Rv_KO_Rv1272	-0.224	-0.065
H37Rv_KO_SugABC	-0.028	0.359
H37Rv_KO_MbtN	-0.392	-0.914
Trans05	-0.004	0.396
macrophage_unactivated	-0.417	-0.726
IL1	-0.16	-0.24
Rapamycin	-0.623	-0.433
Tcell	-0.248	-0.802
GMCSF	0.639	0.013
IFNab	-0.417	-0.713
IFNg	0.425	-0.417
IFNg_GMCSF1	-0.101	0.324
Rv1432_day32	0.24	-0.349
Rv1565c_day32	0.401	0.107
secA2_input	0.567	0.081
delta_Rv3594	-0.037	-0.349
delta_Rv3717	0.0	-0.2
delta_Rv3811	-0.132	-0.41
delta_Rv0954	-0.109	0.576
PonA1	0.139	-0.435
EccD1_KO	0.145	-0.454
EspI_KO	-0.248	-0.468
PE35_KO	-0.405	-0.554
PPE68_KO	-0.541	-0.595
glycerol2	0.335	0.741
lignocerate	0.71	0.494
oleate	0.293	0.686
phosphatidylcholine	0.371	1.046
acetate	0.336	0.539
glucAc	0.532	0.105
Rv0950ko	0.157	-0.036
Rv1096ko	0.507	-0.214
Rv3684ko	-0.662	-0.553
delta_otsA_trehalose	2.564	1.447