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 Rv0176/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0174/mce1F	(cc=0.7911)	info on Rv0174/mce1F
Rv0169/mce1A	(cc=0.7901)	info on Rv0169/mce1A
Rv0175/-	(cc=0.7282)	info on Rv0175/-
Rv0173/lprK	(cc=0.7268)	info on Rv0173/lprK
Rv0168/yrbE1B	(cc=0.7195)	info on Rv0168/yrbE1B
Rv0172/mce1D	(cc=0.7085)	info on Rv0172/mce1D
Rv0170/mce1B	(cc=0.6938)	info on Rv0170/mce1B
Rv0178/-	(cc=0.6752)	info on Rv0178/-
Rv0167/yrbE1A	(cc=0.6442)	info on Rv0167/yrbE1A
Rv0171/mce1C	(cc=0.6364)	info on Rv0171/mce1C

Correlation of Rv0176/- with Rv0174/mce1F

Normalized LFCs for Rv0176/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0176/-	Rv0174/mce1F
Fe_supp_jason_reseq	-0.81	0.123
low_pH_jason_reseq	1.268	0.231
NO_jason_reseq	2.659	2.058
B6_jason_reseq	0.249	-0.149
MHCII_jason_reseq	-1.942	-1.503
Isoniazid02	0.237	-0.682
Rifampicin4	1.803	1.801
Ethambutol3	1.617	-0.441
Meropenem3	2.131	2.802
Vancomycin16	1.963	1.655
Rv2680_day32	0.076	-0.696
H37Rv_KO_MarP	0.896	0.092
hypoxia_3wks	1.878	2.388
hypoxia_6wks	2.24	2.023
glycerol	1.777	0.484
cholesterol	5.769	1.165
AJ	0.476	-0.141
Bibs02	-3.257	-2.538
Bibs02c	-1.758	-2.342
BL6	-0.548	-0.162
BL6a	-0.72	-1.442
BXD01	1.566	0.688
BXD010	0.482	0.189
BXD011	1.161	0.256
BXD03	1.029	0.243
BXD04	0.753	0.084
BXD05	1.464	0.114
BXD06	0.728	0.029
BXD07	1.32	0.131
BXD08	1.071	-0.301
BXD09	1.447	0.101
CAST	-1.251	-1.418
CCcont	0.185	-0.283
DS01	-1.403	-2.618
DS02	-0.181	-1.785
DS04	-0.496	-1.261
DS0c	-2.382	-2.062
GP01	-1.24	-1.084
GP02	-0.236	-1.896
GP0c	-0.068	-1.121
NOD	-0.864	-0.137
NZO	1.371	0.881
PWK	-1.378	-1.208
H37Rv_KO_CtpC	-0.824	-0.224
H37Rv_KO_CtpD	0.972	0.359
H37Rv_KO_Rv1272	-0.441	-0.489
H37Rv_KO_SugABC	0.956	1.426
H37Rv_KO_MbtN	1.027	0.723
Trans05	-0.173	0.137
macrophage_unactivated	-0.821	-1.285
IL1	-1.195	-1.504
Rapamycin	-2.102	-1.626
Tcell	-1.127	-1.577
GMCSF	-0.523	-0.24
IFNab	-0.109	0.26
IFNg	0.567	0.208
IFNg_GMCSF1	-0.434	0.05
Rv1432_day32	-0.3	-0.84
Rv1565c_day32	-1.995	-1.526
secA2_input	-3.073	-0.941
delta_Rv3594	1.031	0.6
delta_Rv3717	1.739	0.722
delta_Rv3811	0.807	0.845
delta_Rv0954	1.454	0.407
PonA1	0.615	0.537
EccD1_KO	-0.444	-0.385
EspI_KO	-0.168	0.137
PE35_KO	-0.28	-0.37
PPE68_KO	-0.022	-0.442
glycerol2	-0.123	-0.31
lignocerate	-2.384	-2.717
oleate	1.004	0.88
phosphatidylcholine	-0.77	-0.868
acetate	1.162	0.083
glucAc	0.318	-0.119
Rv0950ko	-0.286	0.356
Rv1096ko	-1.318	0.1
Rv3684ko	0.314	0.763
delta_otsA_trehalose	0.337	0.168