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 Rv2352c/PPE38

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

	Rv2947c/pks15	Rv2352c/PPE38
Fe_supp_jason_reseq	-0.232	0.35
low_pH_jason_reseq	-0.918	-1.029
NO_jason_reseq	-0.263	-0.491
B6_jason_reseq	-0.674	-0.488
MHCII_jason_reseq	-0.437	-0.46
Isoniazid02	-1.55	-1.043
Rifampicin4	0.222	-0.208
Ethambutol3	-0.967	-0.882
Meropenem3	-0.809	-1.085
Vancomycin16	-0.634	-0.602
Rv2680_day32	-0.55	-0.611
H37Rv_KO_MarP	-0.322	-0.629
hypoxia_3wks	1.009	-0.06
hypoxia_6wks	0.514	-0.56
glycerol	0.14	0.532
cholesterol	-0.031	0.575
AJ	-0.44	0.321
Bibs02	0.465	0.203
Bibs02c	0.103	0.297
BL6	0.852	0.173
BL6a	0.267	0.425
BXD01	0.546	0.346
BXD010	0.287	-0.031
BXD011	0.25	-0.232
BXD03	0.48	0.503
BXD04	0.708	0.661
BXD05	0.351	0.358
BXD06	0.494	0.167
BXD07	-0.054	0.22
BXD08	0.539	0.298
BXD09	-0.061	0.376
CAST	-0.14	0.235
CCcont	0.293	-0.032
DS01	0.192	0.267
DS02	-0.038	0.17
DS04	0.842	0.554
DS0c	0.126	0.179
GP01	0.584	0.253
GP02	0.151	0.349
GP0c	-0.006	0.348
NOD	-0.293	-0.184
NZO	-0.368	0.393
PWK	0.342	0.06
H37Rv_KO_CtpC	1.048	0.169
H37Rv_KO_CtpD	-0.017	0.659
H37Rv_KO_Rv1272	0.966	1.248
H37Rv_KO_SugABC	0.609	0.005
H37Rv_KO_MbtN	0.417	0.457
Trans05	0.552	1.088
macrophage_unactivated	0.505	0.511
IL1	0.113	-0.11
Rapamycin	-0.709	0.037
Tcell	0.411	-0.495
GMCSF	0.238	0.533
IFNab	0.115	0.054
IFNg	-0.075	0.088
IFNg_GMCSF1	0.886	0.364
Rv1432_day32	-0.512	0.407
Rv1565c_day32	-1.281	-0.141
secA2_input	-0.013	-0.626
delta_Rv3594	0.488	0.583
delta_Rv3717	0.313	-0.374
delta_Rv3811	0.474	0.268
delta_Rv0954	-0.217	0.289
PonA1	0.287	0.085
EccD1_KO	0.289	-0.566
EspI_KO	0.251	-0.031
PE35_KO	0.846	0.105
PPE68_KO	1.008	0.275
glycerol2	0.238	0.167
lignocerate	-0.158	-0.169
oleate	0.241	-0.004
phosphatidylcholine	0.262	-0.224
acetate	-0.545	-0.047
glucAc	-0.258	0.016
Rv0950ko	-0.069	0.277
Rv1096ko	0.054	-0.012
Rv3684ko	-0.766	-0.134
delta_otsA_trehalose	0.244	0.184