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 Rv0105c/rpmB1:

update plot	correlation	link to info on gene
Rv1447c/zwf2	(cc=0.4102)	info on Rv1447c/zwf2
Rv0044c/-	(cc=0.3916)	info on Rv0044c/-
Rv3321c/vapB44	(cc=0.3752)	info on Rv3321c/vapB44
Rv0006/gyrA	(cc=0.3647)	info on Rv0006/gyrA
Rv1769/-	(cc=0.3638)	info on Rv1769/-
Rv2798c/-	(cc=0.3624)	info on Rv2798c/-
Rv0697/-	(cc=0.3569)	info on Rv0697/-
Rv0317c/glpQ2	(cc=0.3495)	info on Rv0317c/glpQ2
Rv0691A/-	(cc=0.3484)	info on Rv0691A/-
Rv3807c/-	(cc=0.344)	info on Rv3807c/-

Correlation of Rv0105c/rpmB1 with Rv0044c/-

Normalized LFCs for Rv0105c/rpmB1:
(description and provenance of datasets)

	Rv0105c/rpmB1	Rv0044c/-
Fe_supp_jason_reseq	1.782	0.218
low_pH_jason_reseq	0.795	0.04
NO_jason_reseq	-1.567	-0.47
B6_jason_reseq	1.567	0.346
MHCII_jason_reseq	1.649	0.656
Isoniazid02	0.147	0.141
Rifampicin4	0.896	0.742
Ethambutol3	-0.478	0.804
Meropenem3	0.503	1.108
Vancomycin16	1.133	0.825
Rv2680_day32	-0.17	-1.564
H37Rv_KO_MarP	-0.048	0.405
hypoxia_3wks	0.558	-0.032
hypoxia_6wks	-0.324	0.165
glycerol	-0.408	0.218
cholesterol	0.656	-0.154
AJ	-1.385	-0.217
Bibs02	1.968	0.293
Bibs02c	-0.591	0.377
BL6	0.585	0.419
BL6a	-0.343	-0.098
BXD01	0.432	-0.228
BXD010	-0.839	-0.171
BXD011	0.4	-0.513
BXD03	0.376	-0.247
BXD04	0.048	0.242
BXD05	-0.352	0.222
BXD06	-0.62	-0.161
BXD07	-0.465	-0.233
BXD08	0.072	-0.091
BXD09	-0.584	-0.16
CAST	0.669	0.082
CCcont	-0.712	-0.159
DS01	-1.068	0.496
DS02	0.44	0.446
DS04	-0.318	0.069
DS0c	-1.486	0.57
GP01	3.076	0.236
GP02	0.206	-0.35
GP0c	1.264	-0.113
NOD	-0.347	0.093
NZO	-0.647	0.172
PWK	0.136	0.294
H37Rv_KO_CtpC	0.956	0.365
H37Rv_KO_CtpD	1.399	0.222
H37Rv_KO_Rv1272	0.375	0.065
H37Rv_KO_SugABC	-2.054	-0.611
H37Rv_KO_MbtN	-0.441	-1.208
Trans05	-0.239	-0.82
macrophage_unactivated	1.114	0.028
IL1	-1.388	0.199
Rapamycin	-0.178	0.255
Tcell	0.57	0.218
GMCSF	0.0	-0.483
IFNab	0.169	0.275
IFNg	0.037	0.535
IFNg_GMCSF1	1.282	0.858
Rv1432_day32	-0.094	-0.312
Rv1565c_day32	-0.706	0.0
secA2_input	-0.869	-0.534
delta_Rv3594	-0.422	0.02
delta_Rv3717	1.354	0.352
delta_Rv3811	1.89	-0.494
delta_Rv0954	1.708	0.376
PonA1	-0.074	0.347
EccD1_KO	-0.109	-0.358
EspI_KO	-0.191	-0.462
PE35_KO	-0.995	-0.473
PPE68_KO	-0.474	-0.416
glycerol2	0.86	0.758
lignocerate	0.155	0.0
oleate	0.38	0.693
phosphatidylcholine	0.539	0.137
acetate	-0.126	-0.329
glucAc	0.277	-0.151
Rv0950ko	0.446	0.103
Rv1096ko	0.654	0.235
Rv3684ko	0.891	0.327
delta_otsA_trehalose	2.478	1.412