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 Rv2325c/-:

update plot	correlation	link to info on gene
Rv1910c/-	(cc=0.5176)	info on Rv1910c/-
Rv3194c/-	(cc=0.4917)	info on Rv3194c/-
Rv1499/-	(cc=0.4308)	info on Rv1499/-
Rv2308/-	(cc=0.4254)	info on Rv2308/-
Rv3618/-	(cc=0.4142)	info on Rv3618/-
Rv3365c/-	(cc=0.3979)	info on Rv3365c/-
Rv1413/-	(cc=0.3914)	info on Rv1413/-
Rv3786c/-	(cc=0.3912)	info on Rv3786c/-
Rv0445c/sigK	(cc=0.3854)	info on Rv0445c/sigK
Rv2199c/-	(cc=0.3847)	info on Rv2199c/-

Correlation of Rv2325c/- with Rv1910c/-

Normalized LFCs for Rv2325c/-:
(description and provenance of datasets)

	Rv2325c/-	Rv1910c/-
Fe_supp_jason_reseq	0.366	0.387
low_pH_jason_reseq	-1.285	-0.726
NO_jason_reseq	-0.801	0.202
B6_jason_reseq	0.169	0.777
MHCII_jason_reseq	-0.355	-0.341
Isoniazid02	0.175	-0.824
Rifampicin4	-0.173	-0.062
Ethambutol3	-0.105	0.178
Meropenem3	0.298	0.761
Vancomycin16	-0.472	0.178
Rv2680_day32	-0.923	-0.585
H37Rv_KO_MarP	-0.423	-0.255
hypoxia_3wks	0.646	-0.163
hypoxia_6wks	0.867	0.351
glycerol	0.0	0.193
cholesterol	-0.228	0.132
AJ	0.055	-0.119
Bibs02	-0.564	-0.297
Bibs02c	0.194	-0.558
BL6	1.552	0.459
BL6a	0.62	0.296
BXD01	-0.633	-0.234
BXD010	-0.276	-0.245
BXD011	-0.2	-0.134
BXD03	0.708	-0.405
BXD04	0.911	0.667
BXD05	1.158	-0.179
BXD06	0.182	0.091
BXD07	-1.037	-0.291
BXD08	-0.932	-0.38
BXD09	0.162	0.021
CAST	0.881	0.035
CCcont	0.969	-0.322
DS01	0.421	-0.63
DS02	0.25	-0.592
DS04	0.306	0.987
DS0c	0.756	0.011
GP01	-1.02	0.185
GP02	0.424	-0.454
GP0c	0.623	0.328
NOD	2.05	0.652
NZO	0.624	0.172
PWK	0.182	0.266
H37Rv_KO_CtpC	2.11	0.235
H37Rv_KO_CtpD	1.764	0.564
H37Rv_KO_Rv1272	-0.988	0.609
H37Rv_KO_SugABC	1.34	0.485
H37Rv_KO_MbtN	1.857	0.14
Trans05	1.786	1.551
macrophage_unactivated	0.985	0.155
IL1	0.285	0.374
Rapamycin	0.957	0.887
Tcell	0.238	-0.036
GMCSF	1.545	0.591
IFNab	1.868	-0.55
IFNg	0.257	0.283
IFNg_GMCSF1	0.654	0.38
Rv1432_day32	0.192	0.456
Rv1565c_day32	-0.766	-0.539
secA2_input	0.243	0.053
delta_Rv3594	-0.907	0.197
delta_Rv3717	-0.42	0.136
delta_Rv3811	0.068	-0.068
delta_Rv0954	-0.193	-0.059
PonA1	-0.409	0.108
EccD1_KO	-0.549	-0.355
EspI_KO	0.188	0.0
PE35_KO	0.0	0.484
PPE68_KO	0.278	0.205
glycerol2	0.772	0.736
lignocerate	1.698	1.068
oleate	-0.604	0.122
phosphatidylcholine	0.804	1.015
acetate	1.302	0.384
glucAc	1.505	0.499
Rv0950ko	1.788	0.169
Rv1096ko	0.986	0.528
Rv3684ko	0.531	0.779
delta_otsA_trehalose	3.058	2.032