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 Rv3064c/-:

update plot	correlation	link to info on gene
Rv0281/-	(cc=0.4621)	info on Rv0281/-
Rv3321c/vapB44	(cc=0.4512)	info on Rv3321c/vapB44
Rv3468c/-	(cc=0.4473)	info on Rv3468c/-
Rv0997/-	(cc=0.4449)	info on Rv0997/-
Rv2689c/-	(cc=0.4438)	info on Rv2689c/-
Rv2575/-	(cc=0.4329)	info on Rv2575/-
Rv0442c/PPE10	(cc=0.432)	info on Rv0442c/PPE10
Rv1562c/treZ	(cc=0.4305)	info on Rv1562c/treZ
Rv3819/-	(cc=0.4286)	info on Rv3819/-
Rv2463/lipP	(cc=0.4163)	info on Rv2463/lipP

Correlation of Rv3064c/- with Rv3468c/-

Normalized LFCs for Rv3064c/-:
(description and provenance of datasets)

	Rv3064c/-	Rv3468c/-
Fe_supp_jason_reseq	-0.497	-0.104
low_pH_jason_reseq	-0.074	-0.315
NO_jason_reseq	0.194	-0.042
B6_jason_reseq	-0.165	0.406
MHCII_jason_reseq	-0.668	0.672
Isoniazid02	0.374	-0.068
Rifampicin4	0.485	0.474
Ethambutol3	1.597	0.028
Meropenem3	0.156	0.134
Vancomycin16	0.379	0.409
Rv2680_day32	0.261	-0.579
H37Rv_KO_MarP	0.509	0.941
hypoxia_3wks	-0.355	0.048
hypoxia_6wks	-0.699	0.196
glycerol	-0.288	-1.011
cholesterol	0.041	-1.651
AJ	0.055	0.289
Bibs02	-0.282	0.697
Bibs02c	-0.071	-0.277
BL6	0.312	0.784
BL6a	0.11	-0.263
BXD01	0.424	-0.319
BXD010	0.106	-0.327
BXD011	0.176	0.378
BXD03	0.081	0.0
BXD04	0.39	-0.09
BXD05	0.429	0.36
BXD06	0.333	0.011
BXD07	0.431	0.084
BXD08	1.596	-0.165
BXD09	0.65	-0.225
CAST	-0.182	0.501
CCcont	0.194	0.012
DS01	0.356	0.262
DS02	-0.011	0.646
DS04	0.684	0.541
DS0c	-0.754	0.402
GP01	-0.324	-1.3
GP02	0.247	-1.096
GP0c	-0.74	-1.138
NOD	0.747	0.28
NZO	-0.107	-0.761
PWK	-0.038	0.217
H37Rv_KO_CtpC	-0.015	-0.464
H37Rv_KO_CtpD	0.094	-0.557
H37Rv_KO_Rv1272	0.45	-0.138
H37Rv_KO_SugABC	0.748	1.076
H37Rv_KO_MbtN	0.295	-0.654
Trans05	-0.322	-1.431
macrophage_unactivated	-0.095	-0.136
IL1	-0.421	0.125
Rapamycin	-0.47	0.095
Tcell	0.016	-0.544
GMCSF	1.22	0.026
IFNab	-0.03	-0.263
IFNg	0.067	-0.478
IFNg_GMCSF1	-0.786	-0.035
Rv1432_day32	0.034	0.207
Rv1565c_day32	2.243	0.37
secA2_input	-0.246	-0.903
delta_Rv3594	-0.177	-0.398
delta_Rv3717	-0.588	0.059
delta_Rv3811	-0.467	-0.097
delta_Rv0954	-0.363	-0.385
PonA1	-0.37	1.07
EccD1_KO	-0.099	-0.184
EspI_KO	-0.513	-0.285
PE35_KO	-0.07	-0.204
PPE68_KO	0.019	-0.272
glycerol2	0.416	1.328
lignocerate	0.608	1.66
oleate	0.346	0.174
phosphatidylcholine	0.706	1.211
acetate	0.672	1.366
glucAc	1.074	1.46
Rv0950ko	0.196	0.268
Rv1096ko	-0.045	1.855
Rv3684ko	0.295	1.389
delta_otsA_trehalose	2.722	3.54