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 Rv0194/-:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.6467)	info on Rv0160c/PE4
Rv0115/hddA	(cc=0.6193)	info on Rv0115/hddA
Rv3738c/PPE66	(cc=0.5742)	info on Rv3738c/PPE66
Rv1501/-	(cc=0.5485)	info on Rv1501/-
Rv1888c/-	(cc=0.536)	info on Rv1888c/-
Rv2390c/-	(cc=0.5346)	info on Rv2390c/-
Rv0232/-	(cc=0.5273)	info on Rv0232/-
Rv0342/iniA	(cc=0.5257)	info on Rv0342/iniA
Rv2077c/-	(cc=0.5153)	info on Rv2077c/-
Rv0354c/PPE7	(cc=0.4966)	info on Rv0354c/PPE7

Correlation of Rv0194/- with Rv0342/iniA

Normalized LFCs for Rv0194/-:
(description and provenance of datasets)

	Rv0194/-	Rv0342/iniA
Fe_supp_jason_reseq	-0.058	-0.583
low_pH_jason_reseq	-0.393	-0.781
NO_jason_reseq	0.037	0.795
B6_jason_reseq	-0.047	0.252
MHCII_jason_reseq	-0.046	0.5
Isoniazid02	-0.858	-2.219
Rifampicin4	0.203	0.33
Ethambutol3	-0.409	-2.382
Meropenem3	-1.028	-1.242
Vancomycin16	-0.464	-0.7
Rv2680_day32	0.181	-0.18
H37Rv_KO_MarP	0.456	0.368
hypoxia_3wks	0.056	-0.112
hypoxia_6wks	0.115	-0.535
glycerol	0.0	0.532
cholesterol	-0.104	0.446
AJ	0.111	0.765
Bibs02	0.0	0.009
Bibs02c	0.035	-0.656
BL6	0.133	-0.238
BL6a	0.089	-0.331
BXD01	-0.121	-0.119
BXD010	0.049	-0.076
BXD011	0.049	0.106
BXD03	-0.036	0.207
BXD04	0.234	0.058
BXD05	-0.11	0.414
BXD06	0.076	0.387
BXD07	0.159	-0.097
BXD08	0.043	0.05
BXD09	-0.027	-0.062
CAST	0.067	0.322
CCcont	-0.01	-0.276
DS01	-0.046	-0.477
DS02	0.071	0.221
DS04	0.056	-0.646
DS0c	0.481	0.489
GP01	0.584	0.527
GP02	0.367	0.28
GP0c	-0.07	0.068
NOD	0.164	0.042
NZO	0.498	0.549
PWK	0.266	0.517
H37Rv_KO_CtpC	0.053	0.207
H37Rv_KO_CtpD	1.262	-0.05
H37Rv_KO_Rv1272	-0.274	0.588
H37Rv_KO_SugABC	0.454	0.512
H37Rv_KO_MbtN	0.423	0.24
Trans05	0.303	0.793
macrophage_unactivated	-0.016	-0.429
IL1	-0.131	-0.35
Rapamycin	-0.193	0.147
Tcell	-0.339	-0.081
GMCSF	0.063	-0.312
IFNab	0.115	0.239
IFNg	0.051	-0.155
IFNg_GMCSF1	0.148	0.176
Rv1432_day32	0.194	0.186
Rv1565c_day32	-0.469	0.39
secA2_input	0.025	0.564
delta_Rv3594	-0.304	-0.509
delta_Rv3717	-0.214	-0.352
delta_Rv3811	-0.173	-0.495
delta_Rv0954	-0.275	-0.351
PonA1	-0.54	-0.163
EccD1_KO	-0.168	0.023
EspI_KO	-0.362	-0.522
PE35_KO	-0.519	-0.292
PPE68_KO	-0.518	-0.659
glycerol2	0.61	0.423
lignocerate	0.496	0.66
oleate	0.564	0.461
phosphatidylcholine	0.335	0.391
acetate	0.098	0.632
glucAc	-0.025	0.381
Rv0950ko	0.507	0.286
Rv1096ko	-0.341	0.531
Rv3684ko	0.0	0.311
delta_otsA_trehalose	-0.205	1.165