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 Rv1159A/-:

update plot	correlation	link to info on gene
Rv0934/pstS1	(cc=0.5509)	info on Rv0934/pstS1
Rv3090/-	(cc=0.4959)	info on Rv3090/-
Rv0940c/-	(cc=0.4839)	info on Rv0940c/-
Rv3329/-	(cc=0.4831)	info on Rv3329/-
Rv0921/-	(cc=0.4778)	info on Rv0921/-
Rv3473c/bpoA	(cc=0.4714)	info on Rv3473c/bpoA
Rv3397c/phyA	(cc=0.465)	info on Rv3397c/phyA
Rv3406/-	(cc=0.4464)	info on Rv3406/-
Rv2160A/-	(cc=0.4364)	info on Rv2160A/-
Rv1489A/-	(cc=0.4243)	info on Rv1489A/-

Correlation of Rv1159A/- with Rv0934/pstS1

Normalized LFCs for Rv1159A/-:
(description and provenance of datasets)

	Rv1159A/-	Rv0934/pstS1
Fe_supp_jason_reseq	-0.142	-0.764
low_pH_jason_reseq	-0.768	-0.391
NO_jason_reseq	0.381	0.722
B6_jason_reseq	0.14	-0.065
MHCII_jason_reseq	-0.671	0.128
Isoniazid02	-2.148	-1.689
Rifampicin4	0.309	0.766
Ethambutol3	-1.914	-2.021
Meropenem3	-1.591	-1.711
Vancomycin16	-0.512	-0.52
Rv2680_day32	0.439	0.066
H37Rv_KO_MarP	0.31	-0.069
hypoxia_3wks	-0.522	-0.419
hypoxia_6wks	-0.572	0.175
glycerol	0.992	0.629
cholesterol	-0.039	0.085
AJ	0.417	0.825
Bibs02	-0.751	-0.389
Bibs02c	1.161	0.33
BL6	1.42	0.977
BL6a	0.696	0.304
BXD01	0.066	0.422
BXD010	0.187	0.584
BXD011	-0.103	0.511
BXD03	0.213	0.348
BXD04	1.33	0.511
BXD05	0.661	0.628
BXD06	0.75	0.692
BXD07	1.124	0.338
BXD08	1.301	0.853
BXD09	0.596	0.432
CAST	-0.092	0.23
CCcont	0.697	0.876
DS01	0.852	-0.092
DS02	-0.507	0.082
DS04	-0.422	-0.52
DS0c	-0.768	0.195
GP01	-0.485	0.91
GP02	0.388	0.519
GP0c	-0.07	-0.494
NOD	-1.15	-0.062
NZO	0.485	0.548
PWK	0.148	0.983
H37Rv_KO_CtpC	0.082	0.027
H37Rv_KO_CtpD	-1.132	-0.76
H37Rv_KO_Rv1272	-1.177	-0.319
H37Rv_KO_SugABC	0.262	-0.146
H37Rv_KO_MbtN	-1.607	-1.123
Trans05	-0.615	-0.059
macrophage_unactivated	-0.29	-0.249
IL1	0.647	-0.424
Rapamycin	-0.911	-0.439
Tcell	0.108	0.169
GMCSF	0.0	-0.209
IFNab	-0.463	-0.372
IFNg	-0.184	0.032
IFNg_GMCSF1	-0.364	0.559
Rv1432_day32	0.763	0.83
Rv1565c_day32	0.704	-0.502
secA2_input	-0.053	-0.067
delta_Rv3594	-0.188	-0.698
delta_Rv3717	0.036	-1.192
delta_Rv3811	0.504	-1.037
delta_Rv0954	1.403	-0.543
PonA1	1.253	-0.383
EccD1_KO	1.02	0.102
EspI_KO	-1.05	0.676
PE35_KO	-0.12	0.481
PPE68_KO	0.064	0.47
glycerol2	0.415	1.275
lignocerate	0.749	1.458
oleate	0.15	0.559
phosphatidylcholine	0.517	0.857
acetate	0.517	1.323
glucAc	0.56	1.288
Rv0950ko	-0.329	-0.148
Rv1096ko	0.0	0.121
Rv3684ko	-0.662	0.206
delta_otsA_trehalose	-0.282	-2.021