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 Rv2431c/PE25:

update plot	correlation	link to info on gene
Rv0989c/grcC2	(cc=0.625)	info on Rv0989c/grcC2
Rv1504c/-	(cc=0.5577)	info on Rv1504c/-
Rv0073/-	(cc=0.5486)	info on Rv0073/-
Rv0832/PE_PGRS12	(cc=0.5339)	info on Rv0832/PE_PGRS12
Rv0456B/mazE1	(cc=0.5265)	info on Rv0456B/mazE1
Rv0820/phoT	(cc=0.526)	info on Rv0820/phoT
Rv2352c/PPE38	(cc=0.5239)	info on Rv2352c/PPE38
Rv2268c/cyp128	(cc=0.5114)	info on Rv2268c/cyp128
Rv3679/-	(cc=0.5094)	info on Rv3679/-
Rv3261/fbiA	(cc=0.5055)	info on Rv3261/fbiA

Correlation of Rv2431c/PE25 with Rv0073/-

Normalized LFCs for Rv2431c/PE25:
(description and provenance of datasets)

	Rv2431c/PE25	Rv0073/-
Fe_supp_jason_reseq	0.619	-0.133
low_pH_jason_reseq	0.522	-0.422
NO_jason_reseq	-0.914	-0.761
B6_jason_reseq	-0.36	0.152
MHCII_jason_reseq	-0.217	-0.392
Isoniazid02	-0.931	-1.654
Rifampicin4	-1.6	-0.801
Ethambutol3	-1.563	-0.55
Meropenem3	-1.653	-1.17
Vancomycin16	-0.921	-1.141
Rv2680_day32	-0.087	0.489
H37Rv_KO_MarP	-0.447	0.0
hypoxia_3wks	0.582	-0.203
hypoxia_6wks	0.0	-0.244
glycerol	3.461	0.812
cholesterol	6.0	0.242
AJ	1.303	-0.076
Bibs02	1.457	0.755
Bibs02c	1.199	0.915
BL6	1.457	0.766
BL6a	2.072	0.042
BXD01	0.827	0.451
BXD010	0.551	0.271
BXD011	2.085	-0.245
BXD03	1.534	0.36
BXD04	1.689	0.559
BXD05	2.296	0.599
BXD06	1.937	0.259
BXD07	2.139	0.015
BXD08	1.605	-0.198
BXD09	2.05	0.235
CAST	-0.192	0.143
CCcont	1.232	-0.04
DS01	3.744	1.3
DS02	3.294	0.553
DS04	3.536	0.41
DS0c	2.665	0.903
GP01	0.531	0.275
GP02	0.806	0.285
GP0c	1.557	-0.336
NOD	1.523	0.395
NZO	0.962	0.306
PWK	2.947	0.796
H37Rv_KO_CtpC	1.81	0.467
H37Rv_KO_CtpD	1.079	1.33
H37Rv_KO_Rv1272	2.011	0.816
H37Rv_KO_SugABC	1.484	-0.049
H37Rv_KO_MbtN	0.09	-0.225
Trans05	2.411	1.018
macrophage_unactivated	0.211	0.208
IL1	0.561	0.08
Rapamycin	0.233	0.338
Tcell	0.72	0.277
GMCSF	-0.304	-0.256
IFNab	0.668	-0.187
IFNg	0.786	-0.241
IFNg_GMCSF1	0.852	-0.512
Rv1432_day32	0.439	-0.489
Rv1565c_day32	5.482	-0.092
secA2_input	-1.575	0.269
delta_Rv3594	0.425	-0.17
delta_Rv3717	0.174	-0.341
delta_Rv3811	0.013	-0.439
delta_Rv0954	1.122	-0.134
PonA1	0.196	-0.008
EccD1_KO	-0.72	-0.102
EspI_KO	-0.148	0.268
PE35_KO	0.639	0.257
PPE68_KO	0.64	0.531
glycerol2	-0.013	0.073
lignocerate	-0.468	-0.323
oleate	0.801	0.336
phosphatidylcholine	0.162	0.022
acetate	-0.753	-1.034
glucAc	-0.664	-0.98
Rv0950ko	0.084	0.271
Rv1096ko	-1.197	0.305
Rv3684ko	-0.177	-0.698
delta_otsA_trehalose	0.513	-0.232