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 Rv3786c/-

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

	Rv2325c/-	Rv3786c/-
Fe_supp_jason_reseq	0.366	-0.2
low_pH_jason_reseq	-1.285	-0.03
NO_jason_reseq	-0.801	-0.386
B6_jason_reseq	0.169	0.123
MHCII_jason_reseq	-0.355	0.456
Isoniazid02	0.175	-0.294
Rifampicin4	-0.173	-0.255
Ethambutol3	-0.105	0.107
Meropenem3	0.298	0.046
Vancomycin16	-0.472	-0.342
Rv2680_day32	-0.923	-0.634
H37Rv_KO_MarP	-0.423	0.477
hypoxia_3wks	0.646	-0.191
hypoxia_6wks	0.867	-0.441
glycerol	0.0	0.171
cholesterol	-0.228	0.142
AJ	0.055	0.008
Bibs02	-0.564	-0.419
Bibs02c	0.194	0.468
BL6	1.552	-0.53
BL6a	0.62	-0.089
BXD01	-0.633	-0.794
BXD010	-0.276	-0.615
BXD011	-0.2	0.351
BXD03	0.708	-0.544
BXD04	0.911	-0.909
BXD05	1.158	-0.295
BXD06	0.182	-0.566
BXD07	-1.037	-0.49
BXD08	-0.932	-0.535
BXD09	0.162	-0.604
CAST	0.881	-0.043
CCcont	0.969	-0.236
DS01	0.421	0.263
DS02	0.25	0.139
DS04	0.306	0.718
DS0c	0.756	0.597
GP01	-1.02	-0.277
GP02	0.424	-0.395
GP0c	0.623	-0.339
NOD	2.05	0.607
NZO	0.624	0.142
PWK	0.182	0.179
H37Rv_KO_CtpC	2.11	-0.379
H37Rv_KO_CtpD	1.764	0.137
H37Rv_KO_Rv1272	-0.988	-0.536
H37Rv_KO_SugABC	1.34	0.194
H37Rv_KO_MbtN	1.857	-0.05
Trans05	1.786	-0.125
macrophage_unactivated	0.985	-0.54
IL1	0.285	0.062
Rapamycin	0.957	-0.064
Tcell	0.238	0.023
GMCSF	1.545	0.354
IFNab	1.868	0.423
IFNg	0.257	-0.607
IFNg_GMCSF1	0.654	0.173
Rv1432_day32	0.192	-0.274
Rv1565c_day32	-0.766	-1.112
secA2_input	0.243	0.235
delta_Rv3594	-0.907	-0.682
delta_Rv3717	-0.42	-0.49
delta_Rv3811	0.068	-0.083
delta_Rv0954	-0.193	-0.105
PonA1	-0.409	0.26
EccD1_KO	-0.549	0.0
EspI_KO	0.188	-0.271
PE35_KO	0.0	-0.478
PPE68_KO	0.278	-0.342
glycerol2	0.772	0.434
lignocerate	1.698	1.033
oleate	-0.604	-0.118
phosphatidylcholine	0.804	0.549
acetate	1.302	0.637
glucAc	1.505	0.633
Rv0950ko	1.788	1.007
Rv1096ko	0.986	0.422
Rv3684ko	0.531	0.567
delta_otsA_trehalose	3.058	-0.024