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 Rv1117/-:

update plot	correlation	link to info on gene
Rv2396/PE_PGRS41	(cc=0.5174)	info on Rv2396/PE_PGRS41
Rv1646/PE17	(cc=0.5113)	info on Rv1646/PE17
Rv3065/mmr	(cc=0.5073)	info on Rv3065/mmr
Rv3184/-	(cc=0.4719)	info on Rv3184/-
Rv3884c/eccA2	(cc=0.4637)	info on Rv3884c/eccA2
Rv0830/-	(cc=0.4427)	info on Rv0830/-
Rv2950c/fadD29	(cc=0.4345)	info on Rv2950c/fadD29
Rv2639c/-	(cc=0.4339)	info on Rv2639c/-
Rv2957/-	(cc=0.4316)	info on Rv2957/-
Rv3749c/-	(cc=0.4311)	info on Rv3749c/-

Correlation of Rv1117/- with Rv2950c/fadD29

Normalized LFCs for Rv1117/-:
(description and provenance of datasets)

	Rv1117/-	Rv2950c/fadD29
Fe_supp_jason_reseq	0.325	0.824
low_pH_jason_reseq	0.652	-0.395
NO_jason_reseq	1.302	0.383
B6_jason_reseq	0.628	0.739
MHCII_jason_reseq	0.89	0.107
Isoniazid02	-1.129	-0.22
Rifampicin4	0.249	0.449
Ethambutol3	-0.731	-0.175
Meropenem3	-0.321	-0.048
Vancomycin16	-0.215	0.0
Rv2680_day32	0.432	0.06
H37Rv_KO_MarP	-0.058	-0.199
hypoxia_3wks	-0.766	-0.478
hypoxia_6wks	-2.107	-0.998
glycerol	-0.05	-0.579
cholesterol	-0.147	-0.355
AJ	1.449	-0.111
Bibs02	0.948	0.147
Bibs02c	1.676	0.168
BL6	-0.049	0.169
BL6a	0.967	0.185
BXD01	0.889	0.132
BXD010	0.198	0.302
BXD011	-0.323	0.228
BXD03	0.727	0.304
BXD04	0.692	0.157
BXD05	0.086	0.006
BXD06	0.574	-0.07
BXD07	0.525	-0.113
BXD08	0.248	-0.018
BXD09	0.195	0.051
CAST	0.906	0.878
CCcont	0.411	0.075
DS01	0.385	0.289
DS02	0.11	0.05
DS04	0.429	0.035
DS0c	-0.099	0.118
GP01	0.369	-0.527
GP02	2.489	-0.419
GP0c	0.316	-0.81
NOD	0.251	-0.459
NZO	1.211	-0.454
PWK	0.566	0.84
H37Rv_KO_CtpC	0.98	0.608
H37Rv_KO_CtpD	-0.532	0.854
H37Rv_KO_Rv1272	1.288	0.23
H37Rv_KO_SugABC	1.45	0.13
H37Rv_KO_MbtN	0.819	0.39
Trans05	0.339	-0.062
macrophage_unactivated	0.095	-0.243
IL1	-1.818	-0.08
Rapamycin	-1.292	-1.004
Tcell	0.306	0.681
GMCSF	-1.31	-0.863
IFNab	0.163	-0.964
IFNg	-1.686	-0.037
IFNg_GMCSF1	-1.1	-0.619
Rv1432_day32	-0.369	-1.253
Rv1565c_day32	0.12	-0.371
secA2_input	2.365	-0.16
delta_Rv3594	0.587	0.012
delta_Rv3717	0.544	-0.49
delta_Rv3811	0.132	0.137
delta_Rv0954	0.464	0.119
PonA1	0.542	-0.225
EccD1_KO	0.96	0.286
EspI_KO	1.694	0.619
PE35_KO	1.89	0.303
PPE68_KO	1.878	0.467
glycerol2	1.418	0.39
lignocerate	0.784	0.751
oleate	1.448	-0.026
phosphatidylcholine	0.98	0.515
acetate	0.741	-0.015
glucAc	0.748	0.104
Rv0950ko	-0.425	-0.157
Rv1096ko	-0.495	-0.688
Rv3684ko	-0.57	-0.603
delta_otsA_trehalose	-1.122	-0.315