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 Rv3365c/-

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

	Rv2325c/-	Rv3365c/-
Fe_supp_jason_reseq	0.366	-0.106
low_pH_jason_reseq	-1.285	-1.225
NO_jason_reseq	-0.801	-0.656
B6_jason_reseq	0.169	0.089
MHCII_jason_reseq	-0.355	-0.529
Isoniazid02	0.175	-1.793
Rifampicin4	-0.173	-0.341
Ethambutol3	-0.105	-1.694
Meropenem3	0.298	-0.516
Vancomycin16	-0.472	-0.114
Rv2680_day32	-0.923	0.184
H37Rv_KO_MarP	-0.423	-1.158
hypoxia_3wks	0.646	-0.61
hypoxia_6wks	0.867	-0.038
glycerol	0.0	-0.647
cholesterol	-0.228	-0.054
AJ	0.055	0.0
Bibs02	-0.564	-0.24
Bibs02c	0.194	0.203
BL6	1.552	0.24
BL6a	0.62	0.27
BXD01	-0.633	0.326
BXD010	-0.276	0.149
BXD011	-0.2	-0.009
BXD03	0.708	0.4
BXD04	0.911	0.184
BXD05	1.158	0.183
BXD06	0.182	0.256
BXD07	-1.037	0.171
BXD08	-0.932	0.181
BXD09	0.162	0.209
CAST	0.881	-0.174
CCcont	0.969	0.155
DS01	0.421	0.068
DS02	0.25	0.769
DS04	0.306	0.859
DS0c	0.756	0.481
GP01	-1.02	0.523
GP02	0.424	1.221
GP0c	0.623	0.135
NOD	2.05	0.277
NZO	0.624	-0.214
PWK	0.182	0.352
H37Rv_KO_CtpC	2.11	0.058
H37Rv_KO_CtpD	1.764	0.875
H37Rv_KO_Rv1272	-0.988	0.362
H37Rv_KO_SugABC	1.34	0.654
H37Rv_KO_MbtN	1.857	0.401
Trans05	1.786	0.908
macrophage_unactivated	0.985	0.615
IL1	0.285	0.418
Rapamycin	0.957	0.285
Tcell	0.238	0.055
GMCSF	1.545	0.222
IFNab	1.868	1.267
IFNg	0.257	0.738
IFNg_GMCSF1	0.654	0.49
Rv1432_day32	0.192	0.471
Rv1565c_day32	-0.766	-0.649
secA2_input	0.243	-0.21
delta_Rv3594	-0.907	0.014
delta_Rv3717	-0.42	0.177
delta_Rv3811	0.068	-0.217
delta_Rv0954	-0.193	-0.226
PonA1	-0.409	0.335
EccD1_KO	-0.549	-0.059
EspI_KO	0.188	-0.402
PE35_KO	0.0	-0.773
PPE68_KO	0.278	-0.419
glycerol2	0.772	0.573
lignocerate	1.698	0.302
oleate	-0.604	-0.132
phosphatidylcholine	0.804	-0.623
acetate	1.302	1.385
glucAc	1.505	0.873
Rv0950ko	1.788	-0.072
Rv1096ko	0.986	1.179
Rv3684ko	0.531	1.009
delta_otsA_trehalose	3.058	0.304