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 Rv3020c/esxS:

update plot	correlation	link to info on gene
Rv3398c/idsA1	(cc=0.5563)	info on Rv3398c/idsA1
Rv1984c/cfp21	(cc=0.5411)	info on Rv1984c/cfp21
Rv1831/-	(cc=0.5351)	info on Rv1831/-
Rv1918c/PPE35	(cc=0.5215)	info on Rv1918c/PPE35
Rv0647c/-	(cc=0.5091)	info on Rv0647c/-
Rv1521/fadD25	(cc=0.4911)	info on Rv1521/fadD25
Rv1787/PPE25	(cc=0.4902)	info on Rv1787/PPE25
Rv1949c/-	(cc=0.4875)	info on Rv1949c/-
Rv1482c/-	(cc=0.4861)	info on Rv1482c/-
Rv2339/mmpL9	(cc=0.4809)	info on Rv2339/mmpL9

Correlation of Rv3020c/esxS with Rv2339/mmpL9

Normalized LFCs for Rv3020c/esxS:
(description and provenance of datasets)

	Rv3020c/esxS	Rv2339/mmpL9
Fe_supp_jason_reseq	-0.174	0.283
low_pH_jason_reseq	-0.077	-0.164
NO_jason_reseq	-1.436	-0.349
B6_jason_reseq	-2.341	-0.289
MHCII_jason_reseq	-1.579	0.481
Isoniazid02	-0.776	0.375
Rifampicin4	0.222	0.0
Ethambutol3	-0.471	0.568
Meropenem3	0.086	-0.052
Vancomycin16	-0.172	0.146
Rv2680_day32	-0.756	0.365
H37Rv_KO_MarP	-0.494	0.047
hypoxia_3wks	0.997	0.267
hypoxia_6wks	1.43	-0.177
glycerol	-2.85	-0.426
cholesterol	-0.657	-0.305
AJ	-1.052	0.247
Bibs02	-2.448	-0.127
Bibs02c	-0.212	-0.276
BL6	-1.966	0.196
BL6a	0.865	0.211
BXD01	1.258	0.253
BXD010	1.112	0.557
BXD011	1.23	0.394
BXD03	-0.226	0.36
BXD04	0.73	0.565
BXD05	0.239	0.615
BXD06	0.531	0.413
BXD07	0.177	0.295
BXD08	1.232	0.087
BXD09	0.718	0.41
CAST	0.332	0.404
CCcont	-1.026	-0.197
DS01	-0.19	0.154
DS02	0.457	-0.126
DS04	1.348	0.6
DS0c	-0.984	0.578
GP01	0.297	0.591
GP02	0.286	0.138
GP0c	-0.132	0.057
NOD	0.609	1.289
NZO	0.22	0.35
PWK	0.978	0.47
H37Rv_KO_CtpC	0.71	0.488
H37Rv_KO_CtpD	0.954	0.668
H37Rv_KO_Rv1272	1.691	1.099
H37Rv_KO_SugABC	-0.883	0.751
H37Rv_KO_MbtN	2.472	0.571
Trans05	1.533	1.072
macrophage_unactivated	1.001	0.42
IL1	0.377	0.611
Rapamycin	-0.503	0.724
Tcell	0.482	-0.648
GMCSF	1.022	1.225
IFNab	0.067	0.801
IFNg	1.296	1.056
IFNg_GMCSF1	1.323	0.55
Rv1432_day32	1.443	0.576
Rv1565c_day32	0.0	0.3
secA2_input	1.094	-0.631
delta_Rv3594	-1.104	-0.072
delta_Rv3717	-0.617	0.0
delta_Rv3811	-0.491	0.046
delta_Rv0954	-2.474	0.079
PonA1	-1.08	-0.293
EccD1_KO	0.855	-0.046
EspI_KO	-0.773	-0.168
PE35_KO	0.665	0.166
PPE68_KO	0.061	0.355
glycerol2	-1.344	0.0
lignocerate	-1.34	0.339
oleate	-0.02	0.081
phosphatidylcholine	-0.734	0.231
acetate	-1.829	-0.048
glucAc	-1.868	-0.227
Rv0950ko	0.983	0.121
Rv1096ko	-1.592	-1.095
Rv3684ko	-0.976	-0.223
delta_otsA_trehalose	-1.151	-0.557