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 Rv1667c/-:

update plot	correlation	link to info on gene
Rv2730/-	(cc=0.4737)	info on Rv2730/-
Rv2568c/-	(cc=0.4511)	info on Rv2568c/-
Rv2134c/-	(cc=0.4495)	info on Rv2134c/-
Rv1886c/fbpB	(cc=0.4388)	info on Rv1886c/fbpB
Rv1364c/-	(cc=0.4356)	info on Rv1364c/-
Rv2886c/-	(cc=0.4301)	info on Rv2886c/-
Rv3818/-	(cc=0.4265)	info on Rv3818/-
Rv3305c/amiA1	(cc=0.4225)	info on Rv3305c/amiA1
Rv0999/-	(cc=0.4204)	info on Rv0999/-
Rv3050c/-	(cc=0.4194)	info on Rv3050c/-

Correlation of Rv1667c/- with Rv2568c/-

Normalized LFCs for Rv1667c/-:
(description and provenance of datasets)

	Rv1667c/-	Rv2568c/-
Fe_supp_jason_reseq	0.344	0.578
low_pH_jason_reseq	-0.241	-1.159
NO_jason_reseq	0.176	0.192
B6_jason_reseq	-1.077	-1.632
MHCII_jason_reseq	0.53	0.028
Isoniazid02	0.473	-0.754
Rifampicin4	-0.658	-0.823
Ethambutol3	-0.213	-0.08
Meropenem3	-0.404	1.381
Vancomycin16	-0.464	-0.626
Rv2680_day32	1.135	-0.078
H37Rv_KO_MarP	-0.538	0.052
hypoxia_3wks	0.861	0.574
hypoxia_6wks	0.491	0.301
glycerol	1.321	-0.238
cholesterol	0.01	-0.126
AJ	0.297	0.064
Bibs02	0.709	-0.736
Bibs02c	0.182	0.141
BL6	0.369	0.376
BL6a	0.479	0.921
BXD01	0.428	0.979
BXD010	0.363	0.826
BXD011	0.54	1.143
BXD03	0.407	1.421
BXD04	0.863	0.372
BXD05	0.373	0.638
BXD06	0.651	0.881
BXD07	0.9	0.796
BXD08	1.084	1.284
BXD09	0.462	0.589
CAST	-0.239	-0.382
CCcont	0.889	0.231
DS01	-0.091	0.279
DS02	0.578	-0.222
DS04	0.236	-0.521
DS0c	0.096	1.398
GP01	1.166	0.544
GP02	0.274	0.853
GP0c	0.689	0.848
NOD	0.584	-0.905
NZO	0.131	0.285
PWK	-0.091	-0.084
H37Rv_KO_CtpC	0.153	0.291
H37Rv_KO_CtpD	0.444	0.707
H37Rv_KO_Rv1272	1.011	1.07
H37Rv_KO_SugABC	-0.207	-0.101
H37Rv_KO_MbtN	-0.178	0.665
Trans05	1.45	2.4
macrophage_unactivated	0.363	-0.587
IL1	0.504	0.365
Rapamycin	0.792	0.43
Tcell	0.267	-0.997
GMCSF	0.124	0.845
IFNab	1.046	-0.142
IFNg	0.032	0.144
IFNg_GMCSF1	-0.116	-0.207
Rv1432_day32	0.369	0.289
Rv1565c_day32	-0.03	-0.335
secA2_input	0.158	-0.128
delta_Rv3594	0.233	0.153
delta_Rv3717	1.169	-0.216
delta_Rv3811	0.404	0.434
delta_Rv0954	1.001	0.233
PonA1	0.671	0.083
EccD1_KO	0.405	-0.349
EspI_KO	0.898	0.722
PE35_KO	0.583	0.703
PPE68_KO	0.47	0.403
glycerol2	-0.036	-0.408
lignocerate	0.296	-0.705
oleate	-1.136	-0.958
phosphatidylcholine	-0.31	-0.518
acetate	0.475	-0.359
glucAc	0.221	-0.223
Rv0950ko	0.292	0.259
Rv1096ko	-0.021	-0.196
Rv3684ko	-0.655	-0.043
delta_otsA_trehalose	-0.103	-1.271