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 Rv2303c/-

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

	Rv2576c/-	Rv2303c/-
Fe_supp_jason_reseq	0.33	-0.186
low_pH_jason_reseq	0.159	0.269
NO_jason_reseq	0.357	0.0
B6_jason_reseq	-0.223	0.047
MHCII_jason_reseq	0.481	0.088
Isoniazid02	0.276	0.111
Rifampicin4	-0.615	-0.195
Ethambutol3	-0.213	0.507
Meropenem3	0.037	0.864
Vancomycin16	0.34	0.0
Rv2680_day32	-0.201	0.163
H37Rv_KO_MarP	0.223	0.134
hypoxia_3wks	0.782	0.439
hypoxia_6wks	0.305	0.23
glycerol	0.513	0.452
cholesterol	-0.269	0.196
AJ	-0.624	0.355
Bibs02	0.845	-0.176
Bibs02c	0.473	-0.056
BL6	-0.766	0.37
BL6a	0.099	0.076
BXD01	0.428	0.184
BXD010	-0.019	0.136
BXD011	0.0	0.401
BXD03	-0.945	-0.036
BXD04	-0.032	0.896
BXD05	0.492	0.786
BXD06	-0.264	0.447
BXD07	-0.088	0.476
BXD08	-0.041	0.101
BXD09	0.138	0.215
CAST	-0.843	0.245
CCcont	-0.558	0.019
DS01	0.233	0.121
DS02	-0.35	-0.306
DS04	1.046	0.394
DS0c	-0.47	0.014
GP01	0.86	0.242
GP02	1.853	0.977
GP0c	0.66	0.067
NOD	-0.083	0.74
NZO	-0.182	0.977
PWK	-0.125	0.429
H37Rv_KO_CtpC	0.686	0.768
H37Rv_KO_CtpD	-0.54	0.523
H37Rv_KO_Rv1272	0.86	0.563
H37Rv_KO_SugABC	0.303	0.293
H37Rv_KO_MbtN	-0.16	0.825
Trans05	1.217	0.981
macrophage_unactivated	-0.319	-0.638
IL1	-0.919	-0.839
Rapamycin	0.209	0.114
Tcell	0.264	0.391
GMCSF	0.18	-0.401
IFNab	-0.514	-0.587
IFNg	-0.476	-0.596
IFNg_GMCSF1	-0.635	-0.544
Rv1432_day32	-0.671	0.27
Rv1565c_day32	0.092	-0.178
secA2_input	-0.178	-0.088
delta_Rv3594	0.248	0.543
delta_Rv3717	0.109	-0.115
delta_Rv3811	0.381	-0.497
delta_Rv0954	-0.933	-0.512
PonA1	0.77	0.495
EccD1_KO	1.246	1.243
EspI_KO	1.417	0.924
PE35_KO	0.846	0.613
PPE68_KO	0.646	0.56
glycerol2	-0.275	-0.167
lignocerate	-0.268	-0.46
oleate	-0.19	-0.139
phosphatidylcholine	0.043	-0.38
acetate	-1.237	-0.08
glucAc	-0.968	-0.328
Rv0950ko	0.437	0.066
Rv1096ko	-0.326	-0.718
Rv3684ko	0.131	0.026
delta_otsA_trehalose	-0.688	0.098