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 Rv0194/-:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.6467)	info on Rv0160c/PE4
Rv0115/hddA	(cc=0.6193)	info on Rv0115/hddA
Rv3738c/PPE66	(cc=0.5742)	info on Rv3738c/PPE66
Rv1501/-	(cc=0.5485)	info on Rv1501/-
Rv1888c/-	(cc=0.536)	info on Rv1888c/-
Rv2390c/-	(cc=0.5346)	info on Rv2390c/-
Rv0232/-	(cc=0.5273)	info on Rv0232/-
Rv0342/iniA	(cc=0.5257)	info on Rv0342/iniA
Rv2077c/-	(cc=0.5153)	info on Rv2077c/-
Rv0354c/PPE7	(cc=0.4966)	info on Rv0354c/PPE7

Correlation of Rv0194/- with Rv1888c/-

Normalized LFCs for Rv0194/-:
(description and provenance of datasets)

	Rv0194/-	Rv1888c/-
Fe_supp_jason_reseq	-0.058	0.489
low_pH_jason_reseq	-0.393	-0.756
NO_jason_reseq	0.037	0.016
B6_jason_reseq	-0.047	-0.92
MHCII_jason_reseq	-0.046	-0.144
Isoniazid02	-0.858	-0.562
Rifampicin4	0.203	-0.544
Ethambutol3	-0.409	-0.328
Meropenem3	-1.028	-1.072
Vancomycin16	-0.464	-0.424
Rv2680_day32	0.181	0.996
H37Rv_KO_MarP	0.456	0.73
hypoxia_3wks	0.056	-0.072
hypoxia_6wks	0.115	-0.449
glycerol	0.0	-0.884
cholesterol	-0.104	-0.623
AJ	0.111	-0.583
Bibs02	0.0	-0.31
Bibs02c	0.035	-0.332
BL6	0.133	0.253
BL6a	0.089	0.154
BXD01	-0.121	0.154
BXD010	0.049	0.045
BXD011	0.049	0.482
BXD03	-0.036	-0.043
BXD04	0.234	0.039
BXD05	-0.11	-0.067
BXD06	0.076	0.109
BXD07	0.159	0.186
BXD08	0.043	-0.171
BXD09	-0.027	0.221
CAST	0.067	-0.769
CCcont	-0.01	0.103
DS01	-0.046	-0.351
DS02	0.071	-0.181
DS04	0.056	0.214
DS0c	0.481	0.556
GP01	0.584	0.31
GP02	0.367	1.113
GP0c	-0.07	0.133
NOD	0.164	-0.133
NZO	0.498	-0.691
PWK	0.266	-0.271
H37Rv_KO_CtpC	0.053	-0.105
H37Rv_KO_CtpD	1.262	0.7
H37Rv_KO_Rv1272	-0.274	-0.471
H37Rv_KO_SugABC	0.454	0.097
H37Rv_KO_MbtN	0.423	0.31
Trans05	0.303	-0.545
macrophage_unactivated	-0.016	0.701
IL1	-0.131	-0.294
Rapamycin	-0.193	-0.285
Tcell	-0.339	-0.098
GMCSF	0.063	-0.364
IFNab	0.115	-0.32
IFNg	0.051	-0.494
IFNg_GMCSF1	0.148	-0.625
Rv1432_day32	0.194	0.532
Rv1565c_day32	-0.469	-0.158
secA2_input	0.025	-0.269
delta_Rv3594	-0.304	-0.324
delta_Rv3717	-0.214	-0.084
delta_Rv3811	-0.173	-0.349
delta_Rv0954	-0.275	0.393
PonA1	-0.54	0.017
EccD1_KO	-0.168	-0.391
EspI_KO	-0.362	-0.596
PE35_KO	-0.519	-0.362
PPE68_KO	-0.518	-0.346
glycerol2	0.61	0.722
lignocerate	0.496	0.522
oleate	0.564	0.751
phosphatidylcholine	0.335	0.829
acetate	0.098	0.588
glucAc	-0.025	0.241
Rv0950ko	0.507	0.473
Rv1096ko	-0.341	-0.232
Rv3684ko	0.0	-0.252
delta_otsA_trehalose	-0.205	-1.003