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 Rv2579/dhaA

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

	Rv3092c/-	Rv2579/dhaA
Fe_supp_jason_reseq	-0.603	-0.407
low_pH_jason_reseq	-0.619	-0.845
NO_jason_reseq	-0.186	0.034
B6_jason_reseq	0.108	0.28
MHCII_jason_reseq	-0.022	0.117
Isoniazid02	1.461	0.655
Rifampicin4	-0.368	0.498
Ethambutol3	0.653	0.878
Meropenem3	0.298	0.079
Vancomycin16	0.223	0.196
Rv2680_day32	-1.456	0.432
H37Rv_KO_MarP	-0.027	0.085
hypoxia_3wks	-0.327	0.06
hypoxia_6wks	-0.303	-0.077
glycerol	-1.181	-0.787
cholesterol	-0.622	-0.824
AJ	0.059	0.657
Bibs02	-0.004	-0.411
Bibs02c	0.767	-0.138
BL6	-0.075	0.853
BL6a	0.594	-0.174
BXD01	-0.069	0.0
BXD010	-0.159	-0.019
BXD011	-0.574	-0.104
BXD03	0.197	0.152
BXD04	0.222	-0.286
BXD05	0.01	-0.515
BXD06	-0.08	-0.074
BXD07	0.022	-0.135
BXD08	0.496	0.251
BXD09	-0.253	-0.224
CAST	0.245	0.185
CCcont	-0.166	0.257
DS01	0.055	0.503
DS02	0.095	-0.31
DS04	1.226	0.909
DS0c	0.423	0.214
GP01	0.084	0.084
GP02	0.128	1.387
GP0c	0.311	-0.284
NOD	-0.096	0.301
NZO	0.157	0.551
PWK	-0.227	0.925
H37Rv_KO_CtpC	-0.258	-0.056
H37Rv_KO_CtpD	0.364	-0.025
H37Rv_KO_Rv1272	0.077	0.441
H37Rv_KO_SugABC	-0.21	0.436
H37Rv_KO_MbtN	-0.128	0.208
Trans05	-0.318	-0.073
macrophage_unactivated	0.657	0.685
IL1	0.647	0.534
Rapamycin	0.881	1.062
Tcell	0.779	0.587
GMCSF	0.28	0.425
IFNab	0.795	0.311
IFNg	0.81	0.834
IFNg_GMCSF1	0.126	1.087
Rv1432_day32	0.549	0.36
Rv1565c_day32	0.077	0.169
secA2_input	-0.019	-0.258
delta_Rv3594	-0.805	-0.038
delta_Rv3717	-0.141	0.128
delta_Rv3811	-0.669	-0.086
delta_Rv0954	-0.216	0.245
PonA1	0.252	-1.099
EccD1_KO	0.51	0.309
EspI_KO	0.225	0.222
PE35_KO	0.149	0.732
PPE68_KO	0.291	0.458
glycerol2	0.478	0.622
lignocerate	1.055	0.595
oleate	0.398	0.515
phosphatidylcholine	0.864	0.765
acetate	-0.105	0.294
glucAc	0.305	0.055
Rv0950ko	0.492	0.021
Rv1096ko	0.0	0.241
Rv3684ko	0.052	-0.046
delta_otsA_trehalose	0.016	-0.585