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 Rv2884/-:

update plot	correlation	link to info on gene
Rv1073/-	(cc=0.4757)	info on Rv1073/-
Rv2881c/cdsA	(cc=0.4711)	info on Rv2881c/cdsA
Rv2819c/-	(cc=0.4686)	info on Rv2819c/-
Rv2774c/-	(cc=0.4581)	info on Rv2774c/-
Rv0760c/-	(cc=0.444)	info on Rv0760c/-
Rv2570/-	(cc=0.4419)	info on Rv2570/-
Rv2269c/-	(cc=0.4365)	info on Rv2269c/-
Rv1354c/-	(cc=0.4246)	info on Rv1354c/-
Rv2810c/-	(cc=0.4222)	info on Rv2810c/-
Rv2847c/cysG	(cc=0.4123)	info on Rv2847c/cysG

Correlation of Rv2884/- with Rv2819c/-

Normalized LFCs for Rv2884/-:
(description and provenance of datasets)

	Rv2884/-	Rv2819c/-
Fe_supp_jason_reseq	-0.466	0.257
low_pH_jason_reseq	0.294	-0.032
NO_jason_reseq	-1.483	0.05
B6_jason_reseq	0.101	0.083
MHCII_jason_reseq	0.356	0.392
Isoniazid02	0.796	-0.18
Rifampicin4	-0.717	0.406
Ethambutol3	0.393	1.216
Meropenem3	-0.113	-0.2
Vancomycin16	-0.515	0.255
Rv2680_day32	-0.151	0.526
H37Rv_KO_MarP	-0.666	-0.255
hypoxia_3wks	-0.319	-0.506
hypoxia_6wks	-0.094	-0.196
glycerol	0.057	0.149
cholesterol	-0.684	0.49
AJ	-0.682	1.397
Bibs02	0.229	0.449
Bibs02c	0.209	1.205
BL6	-0.859	0.652
BL6a	0.346	1.124
BXD01	0.248	0.761
BXD010	-0.531	0.543
BXD011	0.359	0.591
BXD03	0.672	0.755
BXD04	-0.274	0.498
BXD05	-0.191	0.611
BXD06	-0.265	0.757
BXD07	-0.407	0.642
BXD08	0.555	0.294
BXD09	0.375	0.652
CAST	0.169	0.48
CCcont	-0.043	0.938
DS01	0.067	1.025
DS02	0.414	0.312
DS04	-0.523	-0.122
DS0c	0.0	1.152
GP01	1.34	0.958
GP02	0.693	1.04
GP0c	0.639	0.714
NOD	0.532	0.858
NZO	-0.178	0.653
PWK	0.279	2.593
H37Rv_KO_CtpC	-0.015	0.992
H37Rv_KO_CtpD	-1.213	-0.144
H37Rv_KO_Rv1272	2.348	0.774
H37Rv_KO_SugABC	0.107	0.194
H37Rv_KO_MbtN	1.712	1.627
Trans05	1.374	1.227
macrophage_unactivated	-0.363	-0.205
IL1	0.0	-0.193
Rapamycin	-0.353	0.374
Tcell	0.567	0.202
GMCSF	0.657	0.164
IFNab	0.254	0.0
IFNg	-0.885	-0.219
IFNg_GMCSF1	-0.157	0.148
Rv1432_day32	-0.222	0.87
Rv1565c_day32	-0.828	-0.935
secA2_input	-0.538	-1.116
delta_Rv3594	0.089	0.0
delta_Rv3717	-0.24	-0.292
delta_Rv3811	-0.516	0.085
delta_Rv0954	-0.262	-1.056
PonA1	-0.538	-0.464
EccD1_KO	0.342	0.378
EspI_KO	0.684	0.516
PE35_KO	1.333	2.106
PPE68_KO	1.872	1.769
glycerol2	0.077	1.002
lignocerate	-0.267	1.189
oleate	0.391	0.438
phosphatidylcholine	0.464	1.028
acetate	-0.364	1.107
glucAc	-0.944	0.709
Rv0950ko	-0.422	-1.013
Rv1096ko	-0.685	-0.805
Rv3684ko	-0.033	-1.336
delta_otsA_trehalose	-0.427	-0.851