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 Rv2689c/-

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

	Rv3064c/-	Rv2689c/-
Fe_supp_jason_reseq	-0.497	-1.129
low_pH_jason_reseq	-0.074	-1.012
NO_jason_reseq	0.194	0.559
B6_jason_reseq	-0.165	-0.512
MHCII_jason_reseq	-0.668	-1.4
Isoniazid02	0.374	-1.215
Rifampicin4	0.485	0.357
Ethambutol3	1.597	0.664
Meropenem3	0.156	-0.204
Vancomycin16	0.379	0.263
Rv2680_day32	0.261	-0.353
H37Rv_KO_MarP	0.509	-0.014
hypoxia_3wks	-0.355	-0.59
hypoxia_6wks	-0.699	-0.019
glycerol	-0.288	0.69
cholesterol	0.041	0.132
AJ	0.055	0.274
Bibs02	-0.282	-0.154
Bibs02c	-0.071	-0.811
BL6	0.312	0.373
BL6a	0.11	-0.151
BXD01	0.424	0.596
BXD010	0.106	0.713
BXD011	0.176	1.253
BXD03	0.081	0.133
BXD04	0.39	-0.028
BXD05	0.429	0.696
BXD06	0.333	0.54
BXD07	0.431	0.818
BXD08	1.596	0.427
BXD09	0.65	0.525
CAST	-0.182	0.662
CCcont	0.194	0.308
DS01	0.356	-0.335
DS02	-0.011	-0.049
DS04	0.684	0.978
DS0c	-0.754	-1.273
GP01	-0.324	0.084
GP02	0.247	0.453
GP0c	-0.74	0.366
NOD	0.747	0.236
NZO	-0.107	0.756
PWK	-0.038	1.159
H37Rv_KO_CtpC	-0.015	0.856
H37Rv_KO_CtpD	0.094	-0.387
H37Rv_KO_Rv1272	0.45	0.203
H37Rv_KO_SugABC	0.748	0.59
H37Rv_KO_MbtN	0.295	-0.164
Trans05	-0.322	0.084
macrophage_unactivated	-0.095	0.104
IL1	-0.421	-0.021
Rapamycin	-0.47	-0.424
Tcell	0.016	0.371
GMCSF	1.22	-0.726
IFNab	-0.03	-0.245
IFNg	0.067	-0.735
IFNg_GMCSF1	-0.786	-0.669
Rv1432_day32	0.034	0.188
Rv1565c_day32	2.243	-0.194
secA2_input	-0.246	0.626
delta_Rv3594	-0.177	-0.171
delta_Rv3717	-0.588	0.518
delta_Rv3811	-0.467	0.018
delta_Rv0954	-0.363	-0.229
PonA1	-0.37	-0.774
EccD1_KO	-0.099	0.441
EspI_KO	-0.513	0.844
PE35_KO	-0.07	0.233
PPE68_KO	0.019	0.464
glycerol2	0.416	0.593
lignocerate	0.608	0.928
oleate	0.346	0.373
phosphatidylcholine	0.706	0.723
acetate	0.672	1.082
glucAc	1.074	0.601
Rv0950ko	0.196	-0.16
Rv1096ko	-0.045	-0.712
Rv3684ko	0.295	0.783
delta_otsA_trehalose	2.722	2.741