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 Rv2286c/-:

update plot	correlation	link to info on gene
Rv1662/pks8	(cc=0.5405)	info on Rv1662/pks8
Rv1964/yrbE3A	(cc=0.4348)	info on Rv1964/yrbE3A
Rv3070/-	(cc=0.4133)	info on Rv3070/-
Rv1076/lipU	(cc=0.4132)	info on Rv1076/lipU
Rv0346c/ansP2	(cc=0.4094)	info on Rv0346c/ansP2
Rv2767c/-	(cc=0.4075)	info on Rv2767c/-
Rv1557/mmpL6	(cc=0.4048)	info on Rv1557/mmpL6
Rv1980c/mpt64	(cc=0.4005)	info on Rv1980c/mpt64
Rv2558/-	(cc=0.3882)	info on Rv2558/-
Rv2231c/cobC	(cc=0.3881)	info on Rv2231c/cobC

Correlation of Rv2286c/- with Rv1076/lipU

Normalized LFCs for Rv2286c/-:
(description and provenance of datasets)

	Rv2286c/-	Rv1076/lipU
Fe_supp_jason_reseq	-0.799	-0.758
low_pH_jason_reseq	-0.052	-0.572
NO_jason_reseq	-0.081	-0.116
B6_jason_reseq	-0.688	-2.089
MHCII_jason_reseq	-0.484	-1.507
Isoniazid02	-0.054	0.432
Rifampicin4	-1.007	-0.531
Ethambutol3	-0.584	-0.204
Meropenem3	-0.435	0.207
Vancomycin16	-0.138	-0.133
Rv2680_day32	0.898	0.01
H37Rv_KO_MarP	-0.246	0.0
hypoxia_3wks	0.096	0.459
hypoxia_6wks	0.198	0.58
glycerol	-0.908	-0.679
cholesterol	-1.314	-0.138
AJ	0.382	-0.467
Bibs02	1.003	-0.487
Bibs02c	-0.182	0.158
BL6	1.322	1.495
BL6a	0.234	0.822
BXD01	-0.07	0.918
BXD010	0.431	1.454
BXD011	0.243	0.801
BXD03	0.326	1.436
BXD04	0.063	0.88
BXD05	0.042	1.378
BXD06	0.17	1.131
BXD07	0.558	1.174
BXD08	0.013	1.727
BXD09	0.699	1.367
CAST	-0.307	-0.123
CCcont	0.219	0.939
DS01	-0.287	-0.127
DS02	-0.397	-0.438
DS04	-0.61	-1.036
DS0c	0.432	-0.116
GP01	1.435	1.274
GP02	-0.52	0.499
GP0c	0.092	0.721
NOD	0.023	-0.599
NZO	0.432	0.444
PWK	1.304	-0.624
H37Rv_KO_CtpC	1.458	1.27
H37Rv_KO_CtpD	1.137	1.152
H37Rv_KO_Rv1272	0.954	-0.155
H37Rv_KO_SugABC	-1.775	-0.446
H37Rv_KO_MbtN	0.657	0.162
Trans05	1.095	1.311
macrophage_unactivated	0.672	0.3
IL1	0.519	0.047
Rapamycin	0.654	0.172
Tcell	0.57	0.261
GMCSF	0.251	0.525
IFNab	0.227	1.206
IFNg	0.086	0.946
IFNg_GMCSF1	1.2	-0.157
Rv1432_day32	0.327	0.597
Rv1565c_day32	-0.493	0.077
secA2_input	0.186	1.268
delta_Rv3594	0.959	-0.087
delta_Rv3717	0.174	0.274
delta_Rv3811	1.038	0.04
delta_Rv0954	1.001	0.791
PonA1	0.613	0.182
EccD1_KO	0.431	0.569
EspI_KO	0.399	0.61
PE35_KO	-0.117	0.385
PPE68_KO	0.243	0.048
glycerol2	0.311	0.839
lignocerate	-0.017	0.841
oleate	0.465	1.355
phosphatidylcholine	0.311	1.133
acetate	0.224	0.116
glucAc	1.153	0.0
Rv0950ko	-0.739	-0.069
Rv1096ko	0.884	0.172
Rv3684ko	-0.18	-0.039
delta_otsA_trehalose	0.648	0.333