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 Rv2576c/-:

update plot	correlation	link to info on gene
Rv2415c/-	(cc=0.5417)	info on Rv2415c/-
Rv2570/-	(cc=0.5292)	info on Rv2570/-
Rv2303c/-	(cc=0.5087)	info on Rv2303c/-
Rv1735c/-	(cc=0.4492)	info on Rv1735c/-
Rv3017c/esxQ	(cc=0.4484)	info on Rv3017c/esxQ
Rv2296/-	(cc=0.4379)	info on Rv2296/-
Rv2266/cyp124	(cc=0.432)	info on Rv2266/cyp124
Rv1970/lprM	(cc=0.4071)	info on Rv1970/lprM
Rv2270/lppN	(cc=0.4059)	info on Rv2270/lppN
Rv2881c/cdsA	(cc=0.4001)	info on Rv2881c/cdsA

Correlation of Rv2576c/- with Rv2296/-

Normalized LFCs for Rv2576c/-:
(description and provenance of datasets)

	Rv2576c/-	Rv2296/-
Fe_supp_jason_reseq	0.33	0.044
low_pH_jason_reseq	0.159	-0.146
NO_jason_reseq	0.357	0.192
B6_jason_reseq	-0.223	-0.606
MHCII_jason_reseq	0.481	-0.186
Isoniazid02	0.276	-0.017
Rifampicin4	-0.615	0.152
Ethambutol3	-0.213	0.058
Meropenem3	0.037	-0.133
Vancomycin16	0.34	-0.011
Rv2680_day32	-0.201	0.351
H37Rv_KO_MarP	0.223	-0.102
hypoxia_3wks	0.782	0.195
hypoxia_6wks	0.305	0.2
glycerol	0.513	0.0
cholesterol	-0.269	-0.134
AJ	-0.624	0.146
Bibs02	0.845	0.056
Bibs02c	0.473	0.199
BL6	-0.766	-0.164
BL6a	0.099	0.0
BXD01	0.428	0.284
BXD010	-0.019	0.005
BXD011	0.0	0.109
BXD03	-0.945	-0.926
BXD04	-0.032	-0.308
BXD05	0.492	0.659
BXD06	-0.264	0.018
BXD07	-0.088	0.069
BXD08	-0.041	0.245
BXD09	0.138	-0.019
CAST	-0.843	0.077
CCcont	-0.558	-0.679
DS01	0.233	0.332
DS02	-0.35	-0.496
DS04	1.046	-0.041
DS0c	-0.47	0.707
GP01	0.86	-0.326
GP02	1.853	1.042
GP0c	0.66	0.061
NOD	-0.083	0.709
NZO	-0.182	-0.007
PWK	-0.125	0.246
H37Rv_KO_CtpC	0.686	-0.194
H37Rv_KO_CtpD	-0.54	0.131
H37Rv_KO_Rv1272	0.86	-0.322
H37Rv_KO_SugABC	0.303	0.325
H37Rv_KO_MbtN	-0.16	-0.014
Trans05	1.217	-0.298
macrophage_unactivated	-0.319	0.0
IL1	-0.919	-0.528
Rapamycin	0.209	-0.074
Tcell	0.264	-0.371
GMCSF	0.18	-0.18
IFNab	-0.514	-0.057
IFNg	-0.476	0.283
IFNg_GMCSF1	-0.635	-0.408
Rv1432_day32	-0.671	0.233
Rv1565c_day32	0.092	0.287
secA2_input	-0.178	0.477
delta_Rv3594	0.248	0.902
delta_Rv3717	0.109	0.464
delta_Rv3811	0.381	0.857
delta_Rv0954	-0.933	-0.045
PonA1	0.77	0.439
EccD1_KO	1.246	1.204
EspI_KO	1.417	0.73
PE35_KO	0.846	1.205
PPE68_KO	0.646	1.353
glycerol2	-0.275	0.601
lignocerate	-0.268	0.029
oleate	-0.19	1.0
phosphatidylcholine	0.043	0.402
acetate	-1.237	-0.289
glucAc	-0.968	-0.705
Rv0950ko	0.437	0.368
Rv1096ko	-0.326	-0.299
Rv3684ko	0.131	-0.373
delta_otsA_trehalose	-0.688	-1.025