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 Rv0891c/-:

update plot	correlation	link to info on gene
Rv0691c/-	(cc=0.4676)	info on Rv0691c/-
Rv0669c/-	(cc=0.4534)	info on Rv0669c/-
Rv3386/-	(cc=0.4383)	info on Rv3386/-
Rv3844/-	(cc=0.4341)	info on Rv3844/-
Rv3529c/-	(cc=0.4236)	info on Rv3529c/-
Rv1509/-	(cc=0.4143)	info on Rv1509/-
Rv0920c/-	(cc=0.4107)	info on Rv0920c/-
Rv2408/PE24	(cc=0.4088)	info on Rv2408/PE24
Rv0886/fprB	(cc=0.4013)	info on Rv0886/fprB
Rv3348/-	(cc=0.3991)	info on Rv3348/-

Correlation of Rv0891c/- with Rv3844/-

Normalized LFCs for Rv0891c/-:
(description and provenance of datasets)

	Rv0891c/-	Rv3844/-
Fe_supp_jason_reseq	1.124	1.097
low_pH_jason_reseq	-0.427	0.515
NO_jason_reseq	-0.037	1.412
B6_jason_reseq	0.924	1.612
MHCII_jason_reseq	0.531	-0.179
Isoniazid02	-0.215	0.476
Rifampicin4	0.187	-0.864
Ethambutol3	0.668	0.049
Meropenem3	-0.201	2.094
Vancomycin16	0.313	1.226
Rv2680_day32	-0.559	-0.848
H37Rv_KO_MarP	1.398	0.378
hypoxia_3wks	-0.231	0.486
hypoxia_6wks	0.2	0.61
glycerol	-0.312	0.268
cholesterol	2.321	4.938
AJ	-0.232	1.44
Bibs02	-0.064	2.556
Bibs02c	0.282	1.44
BL6	0.414	0.118
BL6a	0.646	0.334
BXD01	0.418	1.305
BXD010	0.662	0.881
BXD011	0.447	0.388
BXD03	1.007	0.425
BXD04	0.397	0.44
BXD05	0.928	1.022
BXD06	0.475	0.967
BXD07	0.693	1.294
BXD08	0.721	-0.077
BXD09	0.673	0.019
CAST	0.377	1.7
CCcont	0.574	1.213
DS01	-0.185	0.84
DS02	0.331	2.032
DS04	0.013	0.419
DS0c	-0.387	0.613
GP01	0.121	1.0
GP02	0.117	0.023
GP0c	-0.525	-0.038
NOD	1.359	2.514
NZO	0.244	0.055
PWK	-0.139	-0.608
H37Rv_KO_CtpC	0.266	1.211
H37Rv_KO_CtpD	0.671	1.448
H37Rv_KO_Rv1272	0.129	-2.084
H37Rv_KO_SugABC	-1.442	-1.585
H37Rv_KO_MbtN	-0.416	-1.523
Trans05	-0.191	1.411
macrophage_unactivated	-0.183	0.568
IL1	0.237	-0.211
Rapamycin	0.114	1.706
Tcell	0.544	1.408
GMCSF	-0.615	0.135
IFNab	-0.039	-0.051
IFNg	0.682	2.071
IFNg_GMCSF1	-0.041	-0.283
Rv1432_day32	0.559	0.11
Rv1565c_day32	0.788	0.829
secA2_input	-1.207	-0.573
delta_Rv3594	0.575	0.812
delta_Rv3717	-0.853	-0.186
delta_Rv3811	-0.407	-0.961
delta_Rv0954	-0.092	1.667
PonA1	-0.501	0.372
EccD1_KO	-0.474	-0.059
EspI_KO	0.69	0.254
PE35_KO	0.592	1.117
PPE68_KO	0.518	1.312
glycerol2	0.824	-0.454
lignocerate	0.981	-0.331
oleate	0.776	-1.018
phosphatidylcholine	0.964	-0.529
acetate	0.409	-0.396
glucAc	0.438	-0.335
Rv0950ko	-0.208	0.0
Rv1096ko	0.223	0.241
Rv3684ko	-0.255	-0.452
delta_otsA_trehalose	-0.979	0.055