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 Rv2947c/pks15:

update plot	correlation	link to info on gene
Rv1947/-	(cc=0.5793)	info on Rv1947/-
Rv3145/nuoA	(cc=0.5518)	info on Rv3145/nuoA
Rv2352c/PPE38	(cc=0.5506)	info on Rv2352c/PPE38
Rv2345/-	(cc=0.5434)	info on Rv2345/-
Rv3397c/phyA	(cc=0.5279)	info on Rv3397c/phyA
Rv3125c/PPE49	(cc=0.5199)	info on Rv3125c/PPE49
Rv1169c/lipX	(cc=0.5197)	info on Rv1169c/lipX
Rv3116/moeB2	(cc=0.517)	info on Rv3116/moeB2
Rv1167c/-	(cc=0.5124)	info on Rv1167c/-
Rv3161c/-	(cc=0.5086)	info on Rv3161c/-

Correlation of Rv2947c/pks15 with Rv1947/-

Normalized LFCs for Rv2947c/pks15:
(description and provenance of datasets)

	Rv2947c/pks15	Rv1947/-
Fe_supp_jason_reseq	-0.232	-0.837
low_pH_jason_reseq	-0.918	-1.733
NO_jason_reseq	-0.263	-0.557
B6_jason_reseq	-0.674	-0.522
MHCII_jason_reseq	-0.437	-0.579
Isoniazid02	-1.55	-3.635
Rifampicin4	0.222	0.36
Ethambutol3	-0.967	-3.496
Meropenem3	-0.809	-2.943
Vancomycin16	-0.634	-1.727
Rv2680_day32	-0.55	-0.791
H37Rv_KO_MarP	-0.322	-0.776
hypoxia_3wks	1.009	0.239
hypoxia_6wks	0.514	-0.182
glycerol	0.14	-0.575
cholesterol	-0.031	-0.088
AJ	-0.44	0.37
Bibs02	0.465	0.156
Bibs02c	0.103	0.406
BL6	0.852	0.333
BL6a	0.267	0.234
BXD01	0.546	0.359
BXD010	0.287	1.362
BXD011	0.25	0.022
BXD03	0.48	1.131
BXD04	0.708	0.618
BXD05	0.351	0.617
BXD06	0.494	0.74
BXD07	-0.054	0.49
BXD08	0.539	0.143
BXD09	-0.061	0.431
CAST	-0.14	0.053
CCcont	0.293	-0.335
DS01	0.192	-0.267
DS02	-0.038	-1.111
DS04	0.842	0.443
DS0c	0.126	0.506
GP01	0.584	-0.715
GP02	0.151	-1.404
GP0c	-0.006	0.842
NOD	-0.293	-0.623
NZO	-0.368	-0.998
PWK	0.342	-0.301
H37Rv_KO_CtpC	1.048	0.966
H37Rv_KO_CtpD	-0.017	0.688
H37Rv_KO_Rv1272	0.966	-0.413
H37Rv_KO_SugABC	0.609	2.349
H37Rv_KO_MbtN	0.417	-0.395
Trans05	0.552	0.558
macrophage_unactivated	0.505	1.004
IL1	0.113	0.958
Rapamycin	-0.709	1.897
Tcell	0.411	0.844
GMCSF	0.238	1.36
IFNab	0.115	2.143
IFNg	-0.075	1.451
IFNg_GMCSF1	0.886	2.046
Rv1432_day32	-0.512	-1.632
Rv1565c_day32	-1.281	-0.303
secA2_input	-0.013	0.011
delta_Rv3594	0.488	0.076
delta_Rv3717	0.313	0.143
delta_Rv3811	0.474	0.718
delta_Rv0954	-0.217	-1.416
PonA1	0.287	0.048
EccD1_KO	0.289	-0.506
EspI_KO	0.251	-0.074
PE35_KO	0.846	0.65
PPE68_KO	1.008	0.179
glycerol2	0.238	0.063
lignocerate	-0.158	-0.9
oleate	0.241	1.014
phosphatidylcholine	0.262	-0.123
acetate	-0.545	-1.401
glucAc	-0.258	-2.763
Rv0950ko	-0.069	-0.615
Rv1096ko	0.054	-2.069
Rv3684ko	-0.766	-2.168
delta_otsA_trehalose	0.244	3.544