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 Rv2767c/-

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

	Rv2286c/-	Rv2767c/-
Fe_supp_jason_reseq	-0.799	0.453
low_pH_jason_reseq	-0.052	-0.731
NO_jason_reseq	-0.081	-0.302
B6_jason_reseq	-0.688	-0.164
MHCII_jason_reseq	-0.484	0.028
Isoniazid02	-0.054	-0.573
Rifampicin4	-1.007	-1.384
Ethambutol3	-0.584	-1.338
Meropenem3	-0.435	-1.438
Vancomycin16	-0.138	-1.228
Rv2680_day32	0.898	1.591
H37Rv_KO_MarP	-0.246	0.683
hypoxia_3wks	0.096	-0.136
hypoxia_6wks	0.198	-0.89
glycerol	-0.908	-0.769
cholesterol	-1.314	-0.311
AJ	0.382	0.072
Bibs02	1.003	-0.23
Bibs02c	-0.182	1.449
BL6	1.322	0.825
BL6a	0.234	1.465
BXD01	-0.07	-0.782
BXD010	0.431	0.862
BXD011	0.243	0.391
BXD03	0.326	0.458
BXD04	0.063	0.09
BXD05	0.042	0.533
BXD06	0.17	0.238
BXD07	0.558	0.601
BXD08	0.013	0.009
BXD09	0.699	0.391
CAST	-0.307	-0.195
CCcont	0.219	0.018
DS01	-0.287	0.332
DS02	-0.397	0.488
DS04	-0.61	-0.062
DS0c	0.432	0.888
GP01	1.435	0.77
GP02	-0.52	0.271
GP0c	0.092	-0.427
NOD	0.023	0.215
NZO	0.432	0.428
PWK	1.304	0.084
H37Rv_KO_CtpC	1.458	0.685
H37Rv_KO_CtpD	1.137	0.523
H37Rv_KO_Rv1272	0.954	0.534
H37Rv_KO_SugABC	-1.775	-1.813
H37Rv_KO_MbtN	0.657	-0.631
Trans05	1.095	0.484
macrophage_unactivated	0.672	-0.455
IL1	0.519	0.543
Rapamycin	0.654	0.654
Tcell	0.57	0.218
GMCSF	0.251	0.85
IFNab	0.227	0.381
IFNg	0.086	0.898
IFNg_GMCSF1	1.2	0.361
Rv1432_day32	0.327	0.51
Rv1565c_day32	-0.493	0.24
secA2_input	0.186	-0.302
delta_Rv3594	0.959	-0.277
delta_Rv3717	0.174	-0.327
delta_Rv3811	1.038	-0.694
delta_Rv0954	1.001	0.58
PonA1	0.613	0.185
EccD1_KO	0.431	1.223
EspI_KO	0.399	1.417
PE35_KO	-0.117	0.411
PPE68_KO	0.243	0.125
glycerol2	0.311	-0.835
lignocerate	-0.017	-0.432
oleate	0.465	-0.543
phosphatidylcholine	0.311	-0.618
acetate	0.224	-0.308
glucAc	1.153	-0.141
Rv0950ko	-0.739	-0.265
Rv1096ko	0.884	0.229
Rv3684ko	-0.18	0.531
delta_otsA_trehalose	0.648	-0.204