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 Rv3884c/eccA2

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

	Rv1117/-	Rv3884c/eccA2
Fe_supp_jason_reseq	0.325	-0.377
low_pH_jason_reseq	0.652	-0.718
NO_jason_reseq	1.302	-0.845
B6_jason_reseq	0.628	0.201
MHCII_jason_reseq	0.89	0.406
Isoniazid02	-1.129	-0.818
Rifampicin4	0.249	-0.095
Ethambutol3	-0.731	1.608
Meropenem3	-0.321	-0.131
Vancomycin16	-0.215	-0.39
Rv2680_day32	0.432	0.152
H37Rv_KO_MarP	-0.058	0.222
hypoxia_3wks	-0.766	0.0
hypoxia_6wks	-2.107	-0.409
glycerol	-0.05	0.601
cholesterol	-0.147	0.315
AJ	1.449	0.845
Bibs02	0.948	0.18
Bibs02c	1.676	0.374
BL6	-0.049	0.136
BL6a	0.967	0.373
BXD01	0.889	0.354
BXD010	0.198	0.241
BXD011	-0.323	0.401
BXD03	0.727	0.367
BXD04	0.692	0.845
BXD05	0.086	1.05
BXD06	0.574	0.581
BXD07	0.525	0.207
BXD08	0.248	-0.128
BXD09	0.195	0.292
CAST	0.906	0.434
CCcont	0.411	0.507
DS01	0.385	0.33
DS02	0.11	0.0
DS04	0.429	0.347
DS0c	-0.099	0.121
GP01	0.369	0.118
GP02	2.489	0.756
GP0c	0.316	-0.263
NOD	0.251	0.402
NZO	1.211	0.09
PWK	0.566	0.313
H37Rv_KO_CtpC	0.98	0.707
H37Rv_KO_CtpD	-0.532	-0.06
H37Rv_KO_Rv1272	1.288	0.016
H37Rv_KO_SugABC	1.45	1.163
H37Rv_KO_MbtN	0.819	0.184
Trans05	0.339	0.308
macrophage_unactivated	0.095	-0.514
IL1	-1.818	-0.89
Rapamycin	-1.292	-1.221
Tcell	0.306	-0.349
GMCSF	-1.31	-0.137
IFNab	0.163	-0.907
IFNg	-1.686	-0.553
IFNg_GMCSF1	-1.1	-1.471
Rv1432_day32	-0.369	-1.159
Rv1565c_day32	0.12	-0.319
secA2_input	2.365	-0.409
delta_Rv3594	0.587	-0.563
delta_Rv3717	0.544	-0.191
delta_Rv3811	0.132	0.088
delta_Rv0954	0.464	-0.048
PonA1	0.542	0.209
EccD1_KO	0.96	0.398
EspI_KO	1.694	0.163
PE35_KO	1.89	0.627
PPE68_KO	1.878	0.554
glycerol2	1.418	0.343
lignocerate	0.784	0.058
oleate	1.448	0.164
phosphatidylcholine	0.98	0.179
acetate	0.741	-0.233
glucAc	0.748	0.295
Rv0950ko	-0.425	0.0
Rv1096ko	-0.495	-0.434
Rv3684ko	-0.57	-0.848
delta_otsA_trehalose	-1.122	-0.485