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 Rv0891c/-:

update plot	correlation	link to info on gene
Rv0691c/-	(cc=0.4676)	info on Rv0691c/-
Rv0669c/-	(cc=0.4534)	info on Rv0669c/-
Rv3386/-	(cc=0.4383)	info on Rv3386/-
Rv3844/-	(cc=0.4341)	info on Rv3844/-
Rv3529c/-	(cc=0.4236)	info on Rv3529c/-
Rv1509/-	(cc=0.4143)	info on Rv1509/-
Rv0920c/-	(cc=0.4107)	info on Rv0920c/-
Rv2408/PE24	(cc=0.4088)	info on Rv2408/PE24
Rv0886/fprB	(cc=0.4013)	info on Rv0886/fprB
Rv3348/-	(cc=0.3991)	info on Rv3348/-

Correlation of Rv0891c/- with Rv2408/PE24

Normalized LFCs for Rv0891c/-:
(description and provenance of datasets)

	Rv0891c/-	Rv2408/PE24
Fe_supp_jason_reseq	1.124	0.385
low_pH_jason_reseq	-0.427	-1.752
NO_jason_reseq	-0.037	-1.016
B6_jason_reseq	0.924	-0.122
MHCII_jason_reseq	0.531	0.741
Isoniazid02	-0.215	-0.696
Rifampicin4	0.187	-0.198
Ethambutol3	0.668	-0.822
Meropenem3	-0.201	-0.979
Vancomycin16	0.313	-0.462
Rv2680_day32	-0.559	-0.037
H37Rv_KO_MarP	1.398	0.413
hypoxia_3wks	-0.231	-0.195
hypoxia_6wks	0.2	-0.587
glycerol	-0.312	0.051
cholesterol	2.321	0.357
AJ	-0.232	-0.113
Bibs02	-0.064	0.062
Bibs02c	0.282	-0.065
BL6	0.414	0.094
BL6a	0.646	0.026
BXD01	0.418	-0.1
BXD010	0.662	-0.147
BXD011	0.447	-0.366
BXD03	1.007	-0.228
BXD04	0.397	0.161
BXD05	0.928	0.155
BXD06	0.475	-0.128
BXD07	0.693	-0.249
BXD08	0.721	0.314
BXD09	0.673	-0.26
CAST	0.377	-0.437
CCcont	0.574	0.206
DS01	-0.185	-0.214
DS02	0.331	0.038
DS04	0.013	-0.042
DS0c	-0.387	-0.526
GP01	0.121	0.382
GP02	0.117	0.773
GP0c	-0.525	-0.26
NOD	1.359	0.086
NZO	0.244	-0.062
PWK	-0.139	-0.476
H37Rv_KO_CtpC	0.266	0.035
H37Rv_KO_CtpD	0.671	0.61
H37Rv_KO_Rv1272	0.129	0.404
H37Rv_KO_SugABC	-1.442	-1.885
H37Rv_KO_MbtN	-0.416	-0.428
Trans05	-0.191	-0.041
macrophage_unactivated	-0.183	-0.193
IL1	0.237	0.475
Rapamycin	0.114	0.565
Tcell	0.544	-0.088
GMCSF	-0.615	-0.539
IFNab	-0.039	-0.254
IFNg	0.682	0.158
IFNg_GMCSF1	-0.041	-0.393
Rv1432_day32	0.559	1.288
Rv1565c_day32	0.788	0.063
secA2_input	-1.207	0.393
delta_Rv3594	0.575	-0.021
delta_Rv3717	-0.853	-0.638
delta_Rv3811	-0.407	-0.107
delta_Rv0954	-0.092	0.245
PonA1	-0.501	-0.074
EccD1_KO	-0.474	1.125
EspI_KO	0.69	0.819
PE35_KO	0.592	1.286
PPE68_KO	0.518	0.851
glycerol2	0.824	0.8
lignocerate	0.981	1.162
oleate	0.776	0.53
phosphatidylcholine	0.964	0.866
acetate	0.409	0.131
glucAc	0.438	0.503
Rv0950ko	-0.208	0.449
Rv1096ko	0.223	-0.253
Rv3684ko	-0.255	-0.825
delta_otsA_trehalose	-0.979	0.527