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 Rv2034/-:

update plot	correlation	link to info on gene
Rv0628c/-	(cc=0.4255)	info on Rv0628c/-
Rv1457c/-	(cc=0.4236)	info on Rv1457c/-
Rv2965c/kdtB	(cc=0.4164)	info on Rv2965c/kdtB
Rv3456c/rplQ	(cc=0.4074)	info on Rv3456c/rplQ
Rv0651/rplJ	(cc=0.4066)	info on Rv0651/rplJ
Rv0812/-	(cc=0.3873)	info on Rv0812/-
Rv2609c/-	(cc=0.3773)	info on Rv2609c/-
Rv0681/-	(cc=0.3751)	info on Rv0681/-
Rv1636/TB15.3	(cc=0.371)	info on Rv1636/TB15.3
Rv0791c/-	(cc=0.3666)	info on Rv0791c/-

Correlation of Rv2034/- with Rv0812/-

Normalized LFCs for Rv2034/-:
(description and provenance of datasets)

	Rv2034/-	Rv0812/-
Fe_supp_jason_reseq	0.38	0.766
low_pH_jason_reseq	-0.925	0.44
NO_jason_reseq	1.536	0.362
B6_jason_reseq	-0.723	0.752
MHCII_jason_reseq	-1.112	0.0
Isoniazid02	0.311	0.351
Rifampicin4	1.424	0.0
Ethambutol3	-0.146	0.153
Meropenem3	0.426	0.417
Vancomycin16	0.0	0.334
Rv2680_day32	0.0	2.448
H37Rv_KO_MarP	3.236	5.148
hypoxia_3wks	-0.195	0.0
hypoxia_6wks	-0.933	0.0
glycerol	-0.976	-0.184
cholesterol	-1.504	-0.276
AJ	-1.593	-0.442
Bibs02	0.751	-0.348
Bibs02c	-2.172	-0.399
BL6	0.725	0.376
BL6a	0.0	0.165
BXD01	-0.8	-0.119
BXD010	-1.329	-0.244
BXD011	-0.272	0.106
BXD03	1.5	0.98
BXD04	-0.048	0.199
BXD05	1.87	0.405
BXD06	0.05	-0.122
BXD07	-1.174	0.0
BXD08	0.236	0.0
BXD09	0.422	0.117
CAST	0.0	0.839
CCcont	1.193	0.124
DS01	1.571	0.38
DS02	0.893	-0.414
DS04	2.753	1.405
DS0c	-0.174	-0.198
GP01	-1.025	-0.188
GP02	-0.864	-0.159
GP0c	-1.35	-0.248
NOD	0.399	1.528
NZO	-1.691	-0.38
PWK	-0.948	-0.374
H37Rv_KO_CtpC	0.625	-0.309
H37Rv_KO_CtpD	0.452	-0.241
H37Rv_KO_Rv1272	-1.464	-0.269
H37Rv_KO_SugABC	-0.756	-0.09
H37Rv_KO_MbtN	-0.967	-0.196
Trans05	1.282	-0.249
macrophage_unactivated	-1.398	0.0
IL1	1.13	-0.611
Rapamycin	2.296	-0.632
Tcell	0.661	-0.326
GMCSF	0.776	-0.264
IFNab	2.5	-0.973
IFNg	0.604	1.812
IFNg_GMCSF1	-1.163	-0.647
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	-0.766
secA2_input	5.28	1.349
delta_Rv3594	2.885	0.315
delta_Rv3717	2.146	2.651
delta_Rv3811	1.392	0.306
delta_Rv0954	-0.357	0.707
PonA1	-0.233	1.278
EccD1_KO	2.773	0.0
EspI_KO	0.0	0.0
PE35_KO	-2.234	0.0
PPE68_KO	-0.426	0.403
glycerol2	0.0	0.0
lignocerate	1.128	0.168
oleate	0.0	0.0
phosphatidylcholine	0.193	0.0
acetate	1.998	0.229
glucAc	1.638	0.605
Rv0950ko	1.276	1.049
Rv1096ko	1.342	0.38
Rv3684ko	-1.261	0.789
delta_otsA_trehalose	0.0	-0.133