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 Rv3321c/vapB44

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

	Rv3064c/-	Rv3321c/vapB44
Fe_supp_jason_reseq	-0.497	1.88
low_pH_jason_reseq	-0.074	-0.82
NO_jason_reseq	0.194	0.097
B6_jason_reseq	-0.165	0.505
MHCII_jason_reseq	-0.668	1.109
Isoniazid02	0.374	0.329
Rifampicin4	0.485	0.81
Ethambutol3	1.597	2.563
Meropenem3	0.156	0.532
Vancomycin16	0.379	0.395
Rv2680_day32	0.261	0.2
H37Rv_KO_MarP	0.509	0.471
hypoxia_3wks	-0.355	0.072
hypoxia_6wks	-0.699	-0.737
glycerol	-0.288	-1.182
cholesterol	0.041	0.486
AJ	0.055	-1.294
Bibs02	-0.282	0.567
Bibs02c	-0.071	0.391
BL6	0.312	-0.197
BL6a	0.11	0.709
BXD01	0.424	-0.154
BXD010	0.106	0.135
BXD011	0.176	0.056
BXD03	0.081	0.527
BXD04	0.39	0.172
BXD05	0.429	0.977
BXD06	0.333	-0.177
BXD07	0.431	-0.18
BXD08	1.596	0.535
BXD09	0.65	0.098
CAST	-0.182	0.34
CCcont	0.194	-0.052
DS01	0.356	-0.335
DS02	-0.011	-0.673
DS04	0.684	-0.037
DS0c	-0.754	-0.071
GP01	-0.324	-0.026
GP02	0.247	-1.594
GP0c	-0.74	-0.334
NOD	0.747	0.568
NZO	-0.107	-0.819
PWK	-0.038	-0.006
H37Rv_KO_CtpC	-0.015	-0.079
H37Rv_KO_CtpD	0.094	2.057
H37Rv_KO_Rv1272	0.45	-0.441
H37Rv_KO_SugABC	0.748	-0.09
H37Rv_KO_MbtN	0.295	0.396
Trans05	-0.322	0.132
macrophage_unactivated	-0.095	-0.925
IL1	-0.421	-1.246
Rapamycin	-0.47	-0.049
Tcell	0.016	-0.495
GMCSF	1.22	0.607
IFNab	-0.03	0.704
IFNg	0.067	0.008
IFNg_GMCSF1	-0.786	0.339
Rv1432_day32	0.034	-0.302
Rv1565c_day32	2.243	1.068
secA2_input	-0.246	-0.778
delta_Rv3594	-0.177	0.3
delta_Rv3717	-0.588	0.721
delta_Rv3811	-0.467	0.236
delta_Rv0954	-0.363	-0.349
PonA1	-0.37	0.31
EccD1_KO	-0.099	-0.724
EspI_KO	-0.513	-0.237
PE35_KO	-0.07	-1.167
PPE68_KO	0.019	-1.718
glycerol2	0.416	0.839
lignocerate	0.608	0.539
oleate	0.346	1.16
phosphatidylcholine	0.706	0.873
acetate	0.672	-0.352
glucAc	1.074	0.965
Rv0950ko	0.196	0.811
Rv1096ko	-0.045	0.615
Rv3684ko	0.295	-0.013
delta_otsA_trehalose	2.722	3.088