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 Rv2352c/PPE38

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

	Rv2431c/PE25	Rv2352c/PPE38
Fe_supp_jason_reseq	0.619	0.35
low_pH_jason_reseq	0.522	-1.029
NO_jason_reseq	-0.914	-0.491
B6_jason_reseq	-0.36	-0.488
MHCII_jason_reseq	-0.217	-0.46
Isoniazid02	-0.931	-1.043
Rifampicin4	-1.6	-0.208
Ethambutol3	-1.563	-0.882
Meropenem3	-1.653	-1.085
Vancomycin16	-0.921	-0.602
Rv2680_day32	-0.087	-0.611
H37Rv_KO_MarP	-0.447	-0.629
hypoxia_3wks	0.582	-0.06
hypoxia_6wks	0.0	-0.56
glycerol	3.461	0.532
cholesterol	6.0	0.575
AJ	1.303	0.321
Bibs02	1.457	0.203
Bibs02c	1.199	0.297
BL6	1.457	0.173
BL6a	2.072	0.425
BXD01	0.827	0.346
BXD010	0.551	-0.031
BXD011	2.085	-0.232
BXD03	1.534	0.503
BXD04	1.689	0.661
BXD05	2.296	0.358
BXD06	1.937	0.167
BXD07	2.139	0.22
BXD08	1.605	0.298
BXD09	2.05	0.376
CAST	-0.192	0.235
CCcont	1.232	-0.032
DS01	3.744	0.267
DS02	3.294	0.17
DS04	3.536	0.554
DS0c	2.665	0.179
GP01	0.531	0.253
GP02	0.806	0.349
GP0c	1.557	0.348
NOD	1.523	-0.184
NZO	0.962	0.393
PWK	2.947	0.06
H37Rv_KO_CtpC	1.81	0.169
H37Rv_KO_CtpD	1.079	0.659
H37Rv_KO_Rv1272	2.011	1.248
H37Rv_KO_SugABC	1.484	0.005
H37Rv_KO_MbtN	0.09	0.457
Trans05	2.411	1.088
macrophage_unactivated	0.211	0.511
IL1	0.561	-0.11
Rapamycin	0.233	0.037
Tcell	0.72	-0.495
GMCSF	-0.304	0.533
IFNab	0.668	0.054
IFNg	0.786	0.088
IFNg_GMCSF1	0.852	0.364
Rv1432_day32	0.439	0.407
Rv1565c_day32	5.482	-0.141
secA2_input	-1.575	-0.626
delta_Rv3594	0.425	0.583
delta_Rv3717	0.174	-0.374
delta_Rv3811	0.013	0.268
delta_Rv0954	1.122	0.289
PonA1	0.196	0.085
EccD1_KO	-0.72	-0.566
EspI_KO	-0.148	-0.031
PE35_KO	0.639	0.105
PPE68_KO	0.64	0.275
glycerol2	-0.013	0.167
lignocerate	-0.468	-0.169
oleate	0.801	-0.004
phosphatidylcholine	0.162	-0.224
acetate	-0.753	-0.047
glucAc	-0.664	0.016
Rv0950ko	0.084	0.277
Rv1096ko	-1.197	-0.012
Rv3684ko	-0.177	-0.134
delta_otsA_trehalose	0.513	0.184