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 Rv3092c/-:

update plot	correlation	link to info on gene
Rv3076/-	(cc=0.4927)	info on Rv3076/-
Rv3198A/-	(cc=0.4866)	info on Rv3198A/-
Rv2453c/mobA	(cc=0.4619)	info on Rv2453c/mobA
Rv2579/dhaA	(cc=0.4456)	info on Rv2579/dhaA
Rv1040c/PE8	(cc=0.4283)	info on Rv1040c/PE8
Rv0566c/-	(cc=0.4271)	info on Rv0566c/-
Rv2300c/-	(cc=0.4259)	info on Rv2300c/-
Rv2770c/PPE44	(cc=0.4236)	info on Rv2770c/PPE44
Rv2879c/-	(cc=0.4148)	info on Rv2879c/-
Rv1162/narH	(cc=0.4103)	info on Rv1162/narH

Correlation of Rv3092c/- with Rv2879c/-

Normalized LFCs for Rv3092c/-:
(description and provenance of datasets)

	Rv3092c/-	Rv2879c/-
Fe_supp_jason_reseq	-0.603	-0.431
low_pH_jason_reseq	-0.619	-0.86
NO_jason_reseq	-0.186	-0.013
B6_jason_reseq	0.108	0.737
MHCII_jason_reseq	-0.022	0.494
Isoniazid02	1.461	-0.025
Rifampicin4	-0.368	0.68
Ethambutol3	0.653	0.765
Meropenem3	0.298	-0.041
Vancomycin16	0.223	0.846
Rv2680_day32	-1.456	-1.058
H37Rv_KO_MarP	-0.027	0.127
hypoxia_3wks	-0.327	-0.315
hypoxia_6wks	-0.303	-0.75
glycerol	-1.181	-0.139
cholesterol	-0.622	-0.354
AJ	0.059	-0.425
Bibs02	-0.004	0.887
Bibs02c	0.767	0.765
BL6	-0.075	0.388
BL6a	0.594	-0.136
BXD01	-0.069	-0.346
BXD010	-0.159	-0.295
BXD011	-0.574	-0.363
BXD03	0.197	0.302
BXD04	0.222	-0.147
BXD05	0.01	0.274
BXD06	-0.08	-0.373
BXD07	0.022	0.336
BXD08	0.496	-0.173
BXD09	-0.253	0.232
CAST	0.245	-0.082
CCcont	-0.166	-0.3
DS01	0.055	0.098
DS02	0.095	0.126
DS04	1.226	0.923
DS0c	0.423	0.0
GP01	0.084	0.453
GP02	0.128	-1.351
GP0c	0.311	-0.196
NOD	-0.096	-0.431
NZO	0.157	0.0
PWK	-0.227	-0.158
H37Rv_KO_CtpC	-0.258	-0.374
H37Rv_KO_CtpD	0.364	0.406
H37Rv_KO_Rv1272	0.077	-0.156
H37Rv_KO_SugABC	-0.21	0.227
H37Rv_KO_MbtN	-0.128	-1.134
Trans05	-0.318	0.223
macrophage_unactivated	0.657	-0.306
IL1	0.647	0.383
Rapamycin	0.881	0.064
Tcell	0.779	-0.407
GMCSF	0.28	0.055
IFNab	0.795	-0.015
IFNg	0.81	0.096
IFNg_GMCSF1	0.126	0.943
Rv1432_day32	0.549	0.521
Rv1565c_day32	0.077	0.453
secA2_input	-0.019	-0.036
delta_Rv3594	-0.805	-0.835
delta_Rv3717	-0.141	-1.236
delta_Rv3811	-0.669	-0.515
delta_Rv0954	-0.216	-0.486
PonA1	0.252	-0.802
EccD1_KO	0.51	-0.178
EspI_KO	0.225	0.582
PE35_KO	0.149	0.63
PPE68_KO	0.291	0.288
glycerol2	0.478	0.652
lignocerate	1.055	0.293
oleate	0.398	0.434
phosphatidylcholine	0.864	0.423
acetate	-0.105	-0.057
glucAc	0.305	-0.164
Rv0950ko	0.492	0.208
Rv1096ko	0.0	-0.072
Rv3684ko	0.052	0.056
delta_otsA_trehalose	0.016	0.918