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 Rv3270/ctpC:

update plot	correlation	link to info on gene
Rv0407/fgd1	(cc=0.58)	info on Rv0407/fgd1
Rv3261/fbiA	(cc=0.5602)	info on Rv3261/fbiA
Rv0989c/grcC2	(cc=0.5482)	info on Rv0989c/grcC2
Rv3269/-	(cc=0.5427)	info on Rv3269/-
Rv0245/-	(cc=0.4926)	info on Rv0245/-
Rv2973c/recG	(cc=0.4891)	info on Rv2973c/recG
Rv2737c/recA	(cc=0.4848)	info on Rv2737c/recA
Rv2206/-	(cc=0.4655)	info on Rv2206/-
Rv3262/fbiB	(cc=0.4646)	info on Rv3262/fbiB
Rv1008/tatD	(cc=0.4646)	info on Rv1008/tatD

Correlation of Rv3270/ctpC with Rv2973c/recG

Normalized LFCs for Rv3270/ctpC:
(description and provenance of datasets)

	Rv3270/ctpC	Rv2973c/recG
Fe_supp_jason_reseq	1.994	1.077
low_pH_jason_reseq	2.352	-0.156
NO_jason_reseq	-2.263	0.155
B6_jason_reseq	0.078	1.006
MHCII_jason_reseq	0.0	0.427
Isoniazid02	1.371	-0.031
Rifampicin4	1.454	0.165
Ethambutol3	-0.931	0.536
Meropenem3	1.563	0.253
Vancomycin16	-0.154	-0.284
Rv2680_day32	0.588	0.228
H37Rv_KO_MarP	-1.806	-0.285
hypoxia_3wks	-3.72	-0.443
hypoxia_6wks	-1.948	-0.549
glycerol	2.519	0.642
cholesterol	2.06	0.852
AJ	0.442	-0.225
Bibs02	0.0	0.201
Bibs02c	0.0	0.555
BL6	0.439	0.702
BL6a	1.217	0.63
BXD01	0.64	0.248
BXD010	0.0	0.429
BXD011	0.54	0.315
BXD03	0.0	0.604
BXD04	0.0	0.136
BXD05	0.256	0.283
BXD06	0.741	0.202
BXD07	0.38	0.317
BXD08	0.467	0.353
BXD09	0.596	0.494
CAST	0.23	-0.407
CCcont	3.303	1.099
DS01	2.452	1.194
DS02	2.782	1.601
DS04	1.192	0.838
DS0c	1.204	0.69
GP01	0.0	-1.067
GP02	0.0	0.092
GP0c	0.0	-0.507
NOD	0.0	0.384
NZO	1.225	0.178
PWK	1.52	0.216
H37Rv_KO_CtpC	0.162	-0.475
H37Rv_KO_CtpD	0.127	0.192
H37Rv_KO_Rv1272	0.269	0.811
H37Rv_KO_SugABC	2.444	0.729
H37Rv_KO_MbtN	1.319	-0.075
Trans05	0.249	0.584
macrophage_unactivated	-1.31	-0.092
IL1	-1.528	-0.848
Rapamycin	-0.466	-0.773
Tcell	-1.352	-0.71
GMCSF	-0.401	0.0
IFNab	0.212	0.493
IFNg	-0.406	0.639
IFNg_GMCSF1	0.0	-0.28
Rv1432_day32	0.0	0.621
Rv1565c_day32	1.422	-0.142
secA2_input	0.16	-0.276
delta_Rv3594	0.064	0.106
delta_Rv3717	-0.092	-0.045
delta_Rv3811	0.454	0.338
delta_Rv0954	-0.811	-0.678
PonA1	-0.364	0.155
EccD1_KO	0.079	-0.753
EspI_KO	-0.667	0.416
PE35_KO	0.767	0.111
PPE68_KO	0.224	0.522
glycerol2	-0.509	-1.595
lignocerate	0.6	-1.218
oleate	-1.494	-1.613
phosphatidylcholine	-0.413	-1.401
acetate	1.478	-0.229
glucAc	1.563	0.392
Rv0950ko	-0.347	0.154
Rv1096ko	-0.259	0.76
Rv3684ko	0.432	0.632
delta_otsA_trehalose	-1.453	0.408