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 Rv1162/narH

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

	Rv3092c/-	Rv1162/narH
Fe_supp_jason_reseq	-0.603	0.009
low_pH_jason_reseq	-0.619	-0.644
NO_jason_reseq	-0.186	-0.029
B6_jason_reseq	0.108	-0.557
MHCII_jason_reseq	-0.022	0.198
Isoniazid02	1.461	0.0
Rifampicin4	-0.368	0.125
Ethambutol3	0.653	0.624
Meropenem3	0.298	0.812
Vancomycin16	0.223	0.143
Rv2680_day32	-1.456	-0.231
H37Rv_KO_MarP	-0.027	0.622
hypoxia_3wks	-0.327	-0.024
hypoxia_6wks	-0.303	-0.138
glycerol	-1.181	-0.315
cholesterol	-0.622	-0.267
AJ	0.059	0.56
Bibs02	-0.004	-0.452
Bibs02c	0.767	0.346
BL6	-0.075	0.013
BL6a	0.594	0.604
BXD01	-0.069	0.148
BXD010	-0.159	-0.063
BXD011	-0.574	-0.298
BXD03	0.197	-0.376
BXD04	0.222	-0.621
BXD05	0.01	-0.116
BXD06	-0.08	-0.014
BXD07	0.022	-0.053
BXD08	0.496	-0.033
BXD09	-0.253	-0.084
CAST	0.245	-0.33
CCcont	-0.166	-0.463
DS01	0.055	-0.368
DS02	0.095	-0.605
DS04	1.226	0.403
DS0c	0.423	-0.251
GP01	0.084	-0.325
GP02	0.128	-1.049
GP0c	0.311	-0.806
NOD	-0.096	0.644
NZO	0.157	0.053
PWK	-0.227	0.124
H37Rv_KO_CtpC	-0.258	-0.366
H37Rv_KO_CtpD	0.364	0.088
H37Rv_KO_Rv1272	0.077	-0.163
H37Rv_KO_SugABC	-0.21	-0.249
H37Rv_KO_MbtN	-0.128	-0.489
Trans05	-0.318	-0.435
macrophage_unactivated	0.657	0.997
IL1	0.647	0.756
Rapamycin	0.881	0.531
Tcell	0.779	0.257
GMCSF	0.28	0.261
IFNab	0.795	-0.478
IFNg	0.81	-0.037
IFNg_GMCSF1	0.126	-0.107
Rv1432_day32	0.549	0.099
Rv1565c_day32	0.077	0.077
secA2_input	-0.019	0.186
delta_Rv3594	-0.805	-0.228
delta_Rv3717	-0.141	-0.541
delta_Rv3811	-0.669	0.26
delta_Rv0954	-0.216	0.028
PonA1	0.252	0.732
EccD1_KO	0.51	-0.385
EspI_KO	0.225	0.086
PE35_KO	0.149	0.516
PPE68_KO	0.291	0.368
glycerol2	0.478	0.806
lignocerate	1.055	1.264
oleate	0.398	0.858
phosphatidylcholine	0.864	1.272
acetate	-0.105	0.582
glucAc	0.305	0.429
Rv0950ko	0.492	0.172
Rv1096ko	0.0	-0.112
Rv3684ko	0.052	-0.167
delta_otsA_trehalose	0.016	-0.117