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 Rv1586c/-:

update plot	correlation	link to info on gene
Rv1587c/-	(cc=0.4869)	info on Rv1587c/-
Rv2695/-	(cc=0.426)	info on Rv2695/-
Rv3740c/-	(cc=0.4236)	info on Rv3740c/-
Rv0134/ephF	(cc=0.4063)	info on Rv0134/ephF
Rv2974c/-	(cc=0.4058)	info on Rv2974c/-
Rv3681c/whiB4	(cc=0.3923)	info on Rv3681c/whiB4
Rv3026c/-	(cc=0.3916)	info on Rv3026c/-
Rv3440c/-	(cc=0.3904)	info on Rv3440c/-
Rv3606c/folK	(cc=0.3901)	info on Rv3606c/folK
Rv1927/-	(cc=0.39)	info on Rv1927/-

Correlation of Rv1586c/- with Rv3440c/-

Normalized LFCs for Rv1586c/-:
(description and provenance of datasets)

	Rv1586c/-	Rv3440c/-
Fe_supp_jason_reseq	0.35	-0.278
low_pH_jason_reseq	-1.119	-0.925
NO_jason_reseq	-0.147	-0.788
B6_jason_reseq	0.048	-0.178
MHCII_jason_reseq	0.621	-0.112
Isoniazid02	-0.32	0.838
Rifampicin4	0.753	0.85
Ethambutol3	-0.197	0.817
Meropenem3	0.696	0.724
Vancomycin16	-0.244	0.517
Rv2680_day32	-0.367	0.505
H37Rv_KO_MarP	-0.152	-0.023
hypoxia_3wks	-0.451	0.152
hypoxia_6wks	-0.405	0.0
glycerol	0.351	0.758
cholesterol	0.074	0.088
AJ	0.136	0.615
Bibs02	0.784	0.668
Bibs02c	0.605	0.299
BL6	0.555	-0.197
BL6a	0.331	0.113
BXD01	-0.157	0.243
BXD010	0.129	-0.789
BXD011	0.494	-1.159
BXD03	-0.557	-0.563
BXD04	0.108	0.079
BXD05	0.318	-0.97
BXD06	-0.342	-0.476
BXD07	-0.154	-0.377
BXD08	0.281	0.037
BXD09	-0.32	0.019
CAST	0.085	0.417
CCcont	0.182	-0.107
DS01	0.828	0.874
DS02	1.457	0.837
DS04	0.722	0.86
DS0c	1.087	0.701
GP01	0.257	0.0
GP02	1.356	1.055
GP0c	0.192	0.213
NOD	-0.576	0.181
NZO	0.588	0.811
PWK	-0.014	0.244
H37Rv_KO_CtpC	-0.354	0.537
H37Rv_KO_CtpD	-0.288	0.796
H37Rv_KO_Rv1272	-0.043	0.343
H37Rv_KO_SugABC	0.374	1.312
H37Rv_KO_MbtN	0.031	0.29
Trans05	0.114	0.018
macrophage_unactivated	0.3	-0.464
IL1	0.246	-0.065
Rapamycin	0.531	0.178
Tcell	-0.039	-0.42
GMCSF	0.19	-0.293
IFNab	-0.151	0.417
IFNg	0.313	0.222
IFNg_GMCSF1	-0.572	0.101
Rv1432_day32	1.66	0.158
Rv1565c_day32	-0.251	-0.316
secA2_input	-1.393	-0.124
delta_Rv3594	0.106	-0.285
delta_Rv3717	-0.769	-0.643
delta_Rv3811	-0.092	-0.223
delta_Rv0954	0.222	-0.398
PonA1	-0.06	-0.63
EccD1_KO	0.128	-0.237
EspI_KO	0.054	-0.011
PE35_KO	-0.146	-0.061
PPE68_KO	0.093	-0.147
glycerol2	-0.206	1.042
lignocerate	0.418	0.56
oleate	-0.067	1.059
phosphatidylcholine	0.375	0.737
acetate	-0.052	0.17
glucAc	0.488	-0.134
Rv0950ko	1.067	0.805
Rv1096ko	0.582	0.434
Rv3684ko	1.019	0.694
delta_otsA_trehalose	-1.145	-0.583