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 Rv0461/-:

update plot	correlation	link to info on gene
Rv3448/eccD4	(cc=0.5455)	info on Rv3448/eccD4
Rv1429/-	(cc=0.5174)	info on Rv1429/-
Rv0419/lpqM	(cc=0.5032)	info on Rv0419/lpqM
Rv1287/-	(cc=0.4909)	info on Rv1287/-
Rv2613c/-	(cc=0.4454)	info on Rv2613c/-
Rv3058c/-	(cc=0.442)	info on Rv3058c/-
Rv3060c/-	(cc=0.4415)	info on Rv3060c/-
Rv1291c/-	(cc=0.433)	info on Rv1291c/-
Rv1171/-	(cc=0.4315)	info on Rv1171/-
Rv0837c/-	(cc=0.4289)	info on Rv0837c/-

Correlation of Rv0461/- with Rv1429/-

Normalized LFCs for Rv0461/-:
(description and provenance of datasets)

	Rv0461/-	Rv1429/-
Fe_supp_jason_reseq	0.341	0.548
low_pH_jason_reseq	0.027	-0.415
NO_jason_reseq	0.15	0.142
B6_jason_reseq	0.173	0.463
MHCII_jason_reseq	0.809	0.589
Isoniazid02	-0.893	-0.314
Rifampicin4	0.942	0.049
Ethambutol3	0.61	-0.251
Meropenem3	-0.132	-0.722
Vancomycin16	-0.817	-0.199
Rv2680_day32	0.367	-0.481
H37Rv_KO_MarP	1.28	0.728
hypoxia_3wks	-0.096	-0.439
hypoxia_6wks	-0.328	-0.407
glycerol	0.255	-0.59
cholesterol	0.336	-0.744
AJ	0.077	0.094
Bibs02	-0.519	-0.019
Bibs02c	0.047	-0.182
BL6	-0.569	-0.621
BL6a	0.07	-0.276
BXD01	-0.041	-0.636
BXD010	-0.247	-0.523
BXD011	-0.224	0.197
BXD03	-0.152	-0.279
BXD04	0.138	0.727
BXD05	-0.264	-0.007
BXD06	-0.579	-0.708
BXD07	-0.047	-0.081
BXD08	0.559	0.169
BXD09	-0.175	-0.373
CAST	-0.309	0.239
CCcont	-0.248	-0.899
DS01	-0.214	-0.286
DS02	-0.03	-0.547
DS04	0.306	0.53
DS0c	-0.093	0.121
GP01	-0.795	-0.977
GP02	0.389	-0.177
GP0c	-0.365	-0.869
NOD	-0.05	0.034
NZO	-0.056	0.698
PWK	-0.438	-0.628
H37Rv_KO_CtpC	0.248	0.424
H37Rv_KO_CtpD	-0.111	0.246
H37Rv_KO_Rv1272	-0.71	-1.513
H37Rv_KO_SugABC	-0.066	0.079
H37Rv_KO_MbtN	-0.487	-0.785
Trans05	-0.301	-0.363
macrophage_unactivated	0.698	-0.227
IL1	-0.133	-0.166
Rapamycin	0.249	0.233
Tcell	0.156	-0.209
GMCSF	0.573	-0.042
IFNab	0.221	-0.638
IFNg	0.174	-0.444
IFNg_GMCSF1	-0.214	-0.305
Rv1432_day32	0.305	0.274
Rv1565c_day32	0.938	0.006
secA2_input	0.066	-0.016
delta_Rv3594	0.278	0.044
delta_Rv3717	0.576	-0.486
delta_Rv3811	0.247	0.128
delta_Rv0954	1.28	0.556
PonA1	1.09	0.763
EccD1_KO	0.148	0.385
EspI_KO	0.359	1.252
PE35_KO	-0.099	0.866
PPE68_KO	0.154	0.688
glycerol2	0.633	1.389
lignocerate	0.017	-0.117
oleate	0.645	0.447
phosphatidylcholine	0.426	0.969
acetate	0.175	-0.143
glucAc	0.216	-0.379
Rv0950ko	0.051	0.431
Rv1096ko	0.271	0.347
Rv3684ko	0.95	0.098
delta_otsA_trehalose	-0.165	0.051