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 Rv0856/-:

update plot	correlation	link to info on gene
Rv1192/-	(cc=0.6024)	info on Rv1192/-
Rv3612c/-	(cc=0.5422)	info on Rv3612c/-
Rv0071/-	(cc=0.5323)	info on Rv0071/-
Rv3641c/fic	(cc=0.5232)	info on Rv3641c/fic
Rv1442/bisC	(cc=0.5172)	info on Rv1442/bisC
Rv2351c/plcA	(cc=0.5127)	info on Rv2351c/plcA
Rv0470A/-	(cc=0.4959)	info on Rv0470A/-
Rv3450c/eccB4	(cc=0.4783)	info on Rv3450c/eccB4
Rv1425/-	(cc=0.4773)	info on Rv1425/-
Rv2636/-	(cc=0.4731)	info on Rv2636/-

Correlation of Rv0856/- with Rv1442/bisC

Normalized LFCs for Rv0856/-:
(description and provenance of datasets)

	Rv0856/-	Rv1442/bisC
Fe_supp_jason_reseq	0.164	0.137
low_pH_jason_reseq	-1.101	-0.673
NO_jason_reseq	0.36	-0.431
B6_jason_reseq	1.293	0.363
MHCII_jason_reseq	1.294	0.584
Isoniazid02	0.143	0.316
Rifampicin4	0.125	0.341
Ethambutol3	0.308	0.253
Meropenem3	1.494	0.391
Vancomycin16	0.292	0.385
Rv2680_day32	1.563	0.356
H37Rv_KO_MarP	0.078	0.028
hypoxia_3wks	-0.706	0.0
hypoxia_6wks	-0.37	0.299
glycerol	-0.892	0.53
cholesterol	0.109	0.312
AJ	0.35	0.207
Bibs02	0.24	-0.158
Bibs02c	0.333	0.286
BL6	-1.052	-0.101
BL6a	-0.26	-0.059
BXD01	-0.519	-0.045
BXD010	-1.783	-0.277
BXD011	1.228	-0.315
BXD03	0.372	-0.146
BXD04	-0.291	0.024
BXD05	-0.137	-0.267
BXD06	-0.916	-0.242
BXD07	-0.985	-0.476
BXD08	-0.698	-0.241
BXD09	-0.947	-0.391
CAST	0.911	-0.164
CCcont	-0.807	-0.09
DS01	-0.2	0.303
DS02	0.469	0.336
DS04	1.179	0.426
DS0c	1.222	0.561
GP01	0.336	0.127
GP02	-1.08	0.572
GP0c	-0.844	-0.258
NOD	1.744	0.308
NZO	0.458	-0.02
PWK	0.212	-0.108
H37Rv_KO_CtpC	-0.166	-0.391
H37Rv_KO_CtpD	0.267	0.054
H37Rv_KO_Rv1272	-0.509	-0.967
H37Rv_KO_SugABC	-0.833	0.482
H37Rv_KO_MbtN	-0.753	0.27
Trans05	-0.864	-0.504
macrophage_unactivated	0.246	0.208
IL1	0.353	0.448
Rapamycin	-1.12	0.0
Tcell	-0.072	0.342
GMCSF	0.187	0.438
IFNab	-0.393	0.366
IFNg	-0.874	0.302
IFNg_GMCSF1	0.76	0.402
Rv1432_day32	-1.688	0.018
Rv1565c_day32	1.267	0.742
secA2_input	0.476	-0.528
delta_Rv3594	-1.124	-0.434
delta_Rv3717	-0.529	-0.077
delta_Rv3811	-0.775	-0.391
delta_Rv0954	0.0	-0.261
PonA1	-0.387	-0.113
EccD1_KO	-1.894	-0.158
EspI_KO	-0.739	-0.607
PE35_KO	-1.397	-0.111
PPE68_KO	-1.168	0.0
glycerol2	0.921	0.716
lignocerate	1.406	1.276
oleate	0.417	0.438
phosphatidylcholine	1.224	1.056
acetate	0.931	0.721
glucAc	0.897	0.793
Rv0950ko	-0.19	0.054
Rv1096ko	-1.267	0.347
Rv3684ko	-0.498	0.0
delta_otsA_trehalose	0.136	0.348