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 Rv3618/-

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

	Rv2325c/-	Rv3618/-
Fe_supp_jason_reseq	0.366	-0.065
low_pH_jason_reseq	-1.285	-0.505
NO_jason_reseq	-0.801	-0.053
B6_jason_reseq	0.169	-0.153
MHCII_jason_reseq	-0.355	0.652
Isoniazid02	0.175	0.0
Rifampicin4	-0.173	-0.485
Ethambutol3	-0.105	-0.033
Meropenem3	0.298	-0.065
Vancomycin16	-0.472	-0.096
Rv2680_day32	-0.923	-0.956
H37Rv_KO_MarP	-0.423	0.04
hypoxia_3wks	0.646	-0.355
hypoxia_6wks	0.867	-0.405
glycerol	0.0	0.209
cholesterol	-0.228	0.377
AJ	0.055	0.435
Bibs02	-0.564	-0.538
Bibs02c	0.194	-0.271
BL6	1.552	0.362
BL6a	0.62	0.026
BXD01	-0.633	-0.217
BXD010	-0.276	-0.334
BXD011	-0.2	0.064
BXD03	0.708	0.068
BXD04	0.911	-0.244
BXD05	1.158	0.459
BXD06	0.182	-0.163
BXD07	-1.037	-0.027
BXD08	-0.932	-0.262
BXD09	0.162	0.07
CAST	0.881	0.185
CCcont	0.969	0.129
DS01	0.421	-0.394
DS02	0.25	0.187
DS04	0.306	-0.142
DS0c	0.756	-0.234
GP01	-1.02	-0.233
GP02	0.424	-0.47
GP0c	0.623	-0.777
NOD	2.05	1.699
NZO	0.624	0.416
PWK	0.182	0.388
H37Rv_KO_CtpC	2.11	-0.234
H37Rv_KO_CtpD	1.764	-0.26
H37Rv_KO_Rv1272	-0.988	-0.579
H37Rv_KO_SugABC	1.34	1.365
H37Rv_KO_MbtN	1.857	0.154
Trans05	1.786	-0.104
macrophage_unactivated	0.985	-0.287
IL1	0.285	-0.424
Rapamycin	0.957	0.399
Tcell	0.238	-0.033
GMCSF	1.545	0.594
IFNab	1.868	-0.151
IFNg	0.257	0.128
IFNg_GMCSF1	0.654	0.886
Rv1432_day32	0.192	0.12
Rv1565c_day32	-0.766	-1.06
secA2_input	0.243	0.618
delta_Rv3594	-0.907	0.471
delta_Rv3717	-0.42	0.513
delta_Rv3811	0.068	0.7
delta_Rv0954	-0.193	0.072
PonA1	-0.409	0.42
EccD1_KO	-0.549	-0.237
EspI_KO	0.188	-0.827
PE35_KO	0.0	-0.053
PPE68_KO	0.278	0.0
glycerol2	0.772	0.891
lignocerate	1.698	1.001
oleate	-0.604	-0.231
phosphatidylcholine	0.804	0.913
acetate	1.302	1.084
glucAc	1.505	1.245
Rv0950ko	1.788	0.691
Rv1096ko	0.986	0.283
Rv3684ko	0.531	0.658
delta_otsA_trehalose	3.058	0.168