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 Rv2822c/-:

update plot	correlation	link to info on gene
Rv1817/-	(cc=0.7829)	info on Rv1817/-
Rv2848c/cobB	(cc=0.7105)	info on Rv2848c/cobB
Rv2113/-	(cc=0.6508)	info on Rv2113/-
Rv0453/PPE11	(cc=0.6223)	info on Rv0453/PPE11
Rv3815c/-	(cc=0.5973)	info on Rv3815c/-
Rv0159c/PE3	(cc=0.5468)	info on Rv0159c/PE3
Rv3862c/whiB6	(cc=0.4468)	info on Rv3862c/whiB6
Rv1480/-	(cc=0.4429)	info on Rv1480/-
Rv1185c/fadD21	(cc=0.434)	info on Rv1185c/fadD21
Rv3685c/cyp137	(cc=0.4255)	info on Rv3685c/cyp137

Correlation of Rv2822c/- with Rv0159c/PE3

Normalized LFCs for Rv2822c/-:
(description and provenance of datasets)

	Rv2822c/-	Rv0159c/PE3
Fe_supp_jason_reseq	-0.535	0.489
low_pH_jason_reseq	-0.621	-0.515
NO_jason_reseq	-0.753	-0.165
B6_jason_reseq	-0.852	0.378
MHCII_jason_reseq	-0.363	0.273
Isoniazid02	1.998	-1.23
Rifampicin4	-0.046	0.138
Ethambutol3	-0.299	-0.674
Meropenem3	-0.32	0.29
Vancomycin16	0.268	-0.523
Rv2680_day32	-0.687	0.421
H37Rv_KO_MarP	-0.196	0.096
hypoxia_3wks	0.582	-0.371
hypoxia_6wks	-0.338	-0.33
glycerol	0.206	-0.227
cholesterol	0.528	-0.35
AJ	-0.198	-0.403
Bibs02	-0.109	0.185
Bibs02c	0.364	0.006
BL6	-0.479	0.374
BL6a	-0.135	0.029
BXD01	0.199	0.482
BXD010	-0.741	0.334
BXD011	-0.632	0.398
BXD03	0.326	0.232
BXD04	-1.13	0.666
BXD05	-0.964	0.303
BXD06	-0.717	0.351
BXD07	-0.515	0.234
BXD08	-0.91	0.473
BXD09	-0.625	0.024
CAST	0.702	0.24
CCcont	-0.169	0.416
DS01	-0.267	-0.05
DS02	0.106	0.244
DS04	-1.041	-0.309
DS0c	0.423	-0.354
GP01	-0.247	0.707
GP02	-0.435	0.599
GP0c	0.083	0.089
NOD	0.391	0.539
NZO	0.727	-0.121
PWK	-0.151	0.045
H37Rv_KO_CtpC	0.454	0.359
H37Rv_KO_CtpD	-1.563	0.905
H37Rv_KO_Rv1272	0.133	0.516
H37Rv_KO_SugABC	1.101	0.492
H37Rv_KO_MbtN	-0.539	0.06
Trans05	0.307	0.465
macrophage_unactivated	1.171	0.821
IL1	1.812	2.287
Rapamycin	1.967	2.087
Tcell	-4.412	-3.904
GMCSF	1.679	1.859
IFNab	2.428	1.868
IFNg	1.898	2.106
IFNg_GMCSF1	2.231	2.225
Rv1432_day32	0.179	0.578
Rv1565c_day32	-0.622	-0.131
secA2_input	-0.308	0.085
delta_Rv3594	1.222	-0.072
delta_Rv3717	-0.747	-0.165
delta_Rv3811	0.805	0.043
delta_Rv0954	0.291	0.195
PonA1	0.384	-0.173
EccD1_KO	-1.322	-0.428
EspI_KO	0.297	-0.419
PE35_KO	1.07	-0.551
PPE68_KO	1.174	-0.65
glycerol2	0.143	1.033
lignocerate	0.095	0.894
oleate	0.145	0.749
phosphatidylcholine	0.2	0.695
acetate	-0.136	0.12
glucAc	-0.206	-0.038
Rv0950ko	-1.423	0.485
Rv1096ko	-1.086	-0.507
Rv3684ko	-0.806	0.0
delta_otsA_trehalose	-0.711	1.592