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 Rv0590/mce2B:

update plot	correlation	link to info on gene
Rv1153c/omt	(cc=0.5438)	info on Rv1153c/omt
Rv2689c/-	(cc=0.453)	info on Rv2689c/-
Rv0442c/PPE10	(cc=0.4458)	info on Rv0442c/PPE10
Rv1001/arcA	(cc=0.4333)	info on Rv1001/arcA
Rv0030/-	(cc=0.4276)	info on Rv0030/-
Rv0958/-	(cc=0.4067)	info on Rv0958/-
Rv2756c/hsdM	(cc=0.3986)	info on Rv2756c/hsdM
Rv0591/mce2C	(cc=0.3969)	info on Rv0591/mce2C
Rv0698/-	(cc=0.3943)	info on Rv0698/-
Rv2407/-	(cc=0.3892)	info on Rv2407/-

Correlation of Rv0590/mce2B with Rv0958/-

Normalized LFCs for Rv0590/mce2B:
(description and provenance of datasets)

	Rv0590/mce2B	Rv0958/-
Fe_supp_jason_reseq	-2.234	-0.766
low_pH_jason_reseq	0.918	0.438
NO_jason_reseq	0.614	0.339
B6_jason_reseq	-2.589	-0.61
MHCII_jason_reseq	-1.251	-1.236
Isoniazid02	0.713	1.34
Rifampicin4	-0.791	0.923
Ethambutol3	-0.422	0.648
Meropenem3	-0.399	0.371
Vancomycin16	-0.6	0.456
Rv2680_day32	-0.828	0.088
H37Rv_KO_MarP	-0.175	-0.432
hypoxia_3wks	-0.586	-0.247
hypoxia_6wks	-0.361	0.244
glycerol	-0.193	0.048
cholesterol	0.073	0.207
AJ	0.203	0.802
Bibs02	1.084	0.234
Bibs02c	-0.859	-0.326
BL6	-0.614	1.632
BL6a	-0.399	0.468
BXD01	0.05	0.933
BXD010	0.128	-0.01
BXD011	-0.236	0.277
BXD03	-0.054	0.737
BXD04	0.047	0.228
BXD05	0.984	0.541
BXD06	-0.473	0.615
BXD07	-0.152	0.82
BXD08	-0.447	1.057
BXD09	-0.095	0.419
CAST	0.23	0.0
CCcont	-0.04	0.77
DS01	-0.294	-0.197
DS02	0.164	0.169
DS04	0.682	0.409
DS0c	0.217	-0.506
GP01	-0.425	1.308
GP02	0.052	1.466
GP0c	0.68	0.592
NOD	0.853	-0.687
NZO	-0.402	-0.049
PWK	0.148	-0.497
H37Rv_KO_CtpC	0.379	0.0
H37Rv_KO_CtpD	0.796	0.648
H37Rv_KO_Rv1272	0.106	-0.181
H37Rv_KO_SugABC	1.642	1.324
H37Rv_KO_MbtN	-1.093	-0.326
Trans05	-1.339	-0.443
macrophage_unactivated	0.133	0.161
IL1	-0.756	0.317
Rapamycin	0.252	0.178
Tcell	0.137	0.143
GMCSF	-0.478	0.283
IFNab	0.308	0.154
IFNg	0.166	-0.398
IFNg_GMCSF1	0.848	0.55
Rv1432_day32	1.043	0.022
Rv1565c_day32	-0.607	-0.038
secA2_input	-0.398	0.559
delta_Rv3594	-0.791	-0.509
delta_Rv3717	-0.715	-0.799
delta_Rv3811	0.378	-0.805
delta_Rv0954	-1.314	-1.052
PonA1	-2.641	0.413
EccD1_KO	0.72	1.352
EspI_KO	1.121	1.172
PE35_KO	-0.064	0.254
PPE68_KO	0.819	0.41
glycerol2	0.038	0.562
lignocerate	0.911	1.455
oleate	0.112	-0.238
phosphatidylcholine	0.562	0.805
acetate	1.16	1.436
glucAc	0.931	0.901
Rv0950ko	0.525	0.504
Rv1096ko	0.323	1.046
Rv3684ko	-0.187	-0.714
delta_otsA_trehalose	2.804	0.457