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 Rv1499/-

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

	Rv2325c/-	Rv1499/-
Fe_supp_jason_reseq	0.366	1.255
low_pH_jason_reseq	-1.285	-0.432
NO_jason_reseq	-0.801	-0.903
B6_jason_reseq	0.169	0.09
MHCII_jason_reseq	-0.355	-0.138
Isoniazid02	0.175	-0.375
Rifampicin4	-0.173	-0.536
Ethambutol3	-0.105	-0.331
Meropenem3	0.298	-0.339
Vancomycin16	-0.472	-0.196
Rv2680_day32	-0.923	0.175
H37Rv_KO_MarP	-0.423	-0.526
hypoxia_3wks	0.646	-0.12
hypoxia_6wks	0.867	0.574
glycerol	0.0	-1.131
cholesterol	-0.228	-0.38
AJ	0.055	0.024
Bibs02	-0.564	0.574
Bibs02c	0.194	0.258
BL6	1.552	0.806
BL6a	0.62	-0.225
BXD01	-0.633	0.515
BXD010	-0.276	0.021
BXD011	-0.2	0.388
BXD03	0.708	1.053
BXD04	0.911	0.749
BXD05	1.158	0.33
BXD06	0.182	0.402
BXD07	-1.037	0.579
BXD08	-0.932	0.927
BXD09	0.162	0.752
CAST	0.881	0.325
CCcont	0.969	1.221
DS01	0.421	0.086
DS02	0.25	0.036
DS04	0.306	-0.797
DS0c	0.756	0.357
GP01	-1.02	-0.725
GP02	0.424	0.852
GP0c	0.623	-0.44
NOD	2.05	-0.298
NZO	0.624	0.952
PWK	0.182	-0.074
H37Rv_KO_CtpC	2.11	0.984
H37Rv_KO_CtpD	1.764	1.16
H37Rv_KO_Rv1272	-0.988	0.512
H37Rv_KO_SugABC	1.34	0.481
H37Rv_KO_MbtN	1.857	0.679
Trans05	1.786	0.207
macrophage_unactivated	0.985	2.838
IL1	0.285	0.638
Rapamycin	0.957	-0.212
Tcell	0.238	1.14
GMCSF	1.545	0.908
IFNab	1.868	0.154
IFNg	0.257	0.556
IFNg_GMCSF1	0.654	0.892
Rv1432_day32	0.192	0.231
Rv1565c_day32	-0.766	0.584
secA2_input	0.243	-0.061
delta_Rv3594	-0.907	-0.286
delta_Rv3717	-0.42	-0.909
delta_Rv3811	0.068	-0.149
delta_Rv0954	-0.193	-0.423
PonA1	-0.409	-0.616
EccD1_KO	-0.549	-0.329
EspI_KO	0.188	-0.471
PE35_KO	0.0	-0.239
PPE68_KO	0.278	0.211
glycerol2	0.772	1.606
lignocerate	1.698	2.356
oleate	-0.604	-0.872
phosphatidylcholine	0.804	1.756
acetate	1.302	1.081
glucAc	1.505	1.473
Rv0950ko	1.788	0.817
Rv1096ko	0.986	-0.308
Rv3684ko	0.531	-0.334
delta_otsA_trehalose	3.058	0.256