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 Rv3198A/-

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

	Rv3092c/-	Rv3198A/-
Fe_supp_jason_reseq	-0.603	0.079
low_pH_jason_reseq	-0.619	-0.888
NO_jason_reseq	-0.186	-0.562
B6_jason_reseq	0.108	-0.557
MHCII_jason_reseq	-0.022	-0.498
Isoniazid02	1.461	0.732
Rifampicin4	-0.368	-0.682
Ethambutol3	0.653	0.316
Meropenem3	0.298	0.343
Vancomycin16	0.223	-0.146
Rv2680_day32	-1.456	-0.341
H37Rv_KO_MarP	-0.027	-0.056
hypoxia_3wks	-0.327	-0.08
hypoxia_6wks	-0.303	0.349
glycerol	-1.181	-1.66
cholesterol	-0.622	-0.806
AJ	0.059	-0.015
Bibs02	-0.004	-0.179
Bibs02c	0.767	0.252
BL6	-0.075	-0.255
BL6a	0.594	0.079
BXD01	-0.069	0.208
BXD010	-0.159	0.107
BXD011	-0.574	0.124
BXD03	0.197	0.567
BXD04	0.222	0.901
BXD05	0.01	-0.076
BXD06	-0.08	0.178
BXD07	0.022	0.253
BXD08	0.496	0.421
BXD09	-0.253	0.522
CAST	0.245	-0.167
CCcont	-0.166	0.092
DS01	0.055	0.279
DS02	0.095	0.178
DS04	1.226	-0.03
DS0c	0.423	0.423
GP01	0.084	-0.331
GP02	0.128	-2.099
GP0c	0.311	-0.014
NOD	-0.096	-0.205
NZO	0.157	-0.355
PWK	-0.227	0.247
H37Rv_KO_CtpC	-0.258	-0.265
H37Rv_KO_CtpD	0.364	-0.187
H37Rv_KO_Rv1272	0.077	0.468
H37Rv_KO_SugABC	-0.21	0.75
H37Rv_KO_MbtN	-0.128	0.802
Trans05	-0.318	0.442
macrophage_unactivated	0.657	0.432
IL1	0.647	0.386
Rapamycin	0.881	0.838
Tcell	0.779	-0.235
GMCSF	0.28	1.215
IFNab	0.795	0.378
IFNg	0.81	0.176
IFNg_GMCSF1	0.126	0.575
Rv1432_day32	0.549	0.506
Rv1565c_day32	0.077	-0.044
secA2_input	-0.019	0.186
delta_Rv3594	-0.805	-0.239
delta_Rv3717	-0.141	-0.452
delta_Rv3811	-0.669	-1.016
delta_Rv0954	-0.216	-0.382
PonA1	0.252	-0.184
EccD1_KO	0.51	0.345
EspI_KO	0.225	0.103
PE35_KO	0.149	-0.172
PPE68_KO	0.291	-0.49
glycerol2	0.478	0.86
lignocerate	1.055	0.712
oleate	0.398	0.506
phosphatidylcholine	0.864	0.794
acetate	-0.105	-0.183
glucAc	0.305	0.8
Rv0950ko	0.492	1.01
Rv1096ko	0.0	0.0
Rv3684ko	0.052	0.131
delta_otsA_trehalose	0.016	-0.097