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 Rv3732/-:

update plot	correlation	link to info on gene
Rv0615/-	(cc=0.5241)	info on Rv0615/-
Rv0447c/ufaA1	(cc=0.5189)	info on Rv0447c/ufaA1
Rv0840c/pip	(cc=0.515)	info on Rv0840c/pip
Rv1453/-	(cc=0.5021)	info on Rv1453/-
Rv3655c/-	(cc=0.5016)	info on Rv3655c/-
Rv0233/nrdB	(cc=0.4894)	info on Rv0233/nrdB
Rv0470A/-	(cc=0.4735)	info on Rv0470A/-
Rv2559c/-	(cc=0.4654)	info on Rv2559c/-
Rv1046c/-	(cc=0.4637)	info on Rv1046c/-
Rv0075/-	(cc=0.4553)	info on Rv0075/-

Correlation of Rv3732/- with Rv0615/-

Normalized LFCs for Rv3732/-:
(description and provenance of datasets)

	Rv3732/-	Rv0615/-
Fe_supp_jason_reseq	-0.972	0.382
low_pH_jason_reseq	0.284	-0.579
NO_jason_reseq	-0.591	1.181
B6_jason_reseq	0.367	1.475
MHCII_jason_reseq	0.579	2.31
Isoniazid02	-0.144	0.176
Rifampicin4	0.341	1.194
Ethambutol3	0.677	0.305
Meropenem3	0.09	0.91
Vancomycin16	0.032	1.088
Rv2680_day32	0.4	0.717
H37Rv_KO_MarP	0.309	1.798
hypoxia_3wks	0.052	0.738
hypoxia_6wks	0.307	0.152
glycerol	-0.241	-0.178
cholesterol	-0.12	-0.423
AJ	0.086	0.866
Bibs02	0.754	0.135
Bibs02c	0.62	0.875
BL6	-0.324	-0.652
BL6a	0.478	0.716
BXD01	-0.374	-0.092
BXD010	-0.425	-1.463
BXD011	-0.324	-0.809
BXD03	-0.359	-0.646
BXD04	-0.865	-1.157
BXD05	-0.179	-0.66
BXD06	-0.283	-0.547
BXD07	-0.219	-0.839
BXD08	-0.11	1.721
BXD09	0.0	-1.01
CAST	0.609	0.943
CCcont	-0.63	-0.643
DS01	1.033	1.319
DS02	0.638	1.434
DS04	0.063	1.287
DS0c	1.031	1.194
GP01	0.117	-0.765
GP02	0.503	0.811
GP0c	-1.301	-1.935
NOD	1.121	1.72
NZO	0.834	1.175
PWK	-0.563	0.165
H37Rv_KO_CtpC	-0.493	-1.25
H37Rv_KO_CtpD	0.106	-0.562
H37Rv_KO_Rv1272	0.214	-1.053
H37Rv_KO_SugABC	-0.021	0.719
H37Rv_KO_MbtN	-0.403	-0.097
Trans05	-0.332	-0.391
macrophage_unactivated	0.227	0.663
IL1	-0.142	0.365
Rapamycin	0.316	0.255
Tcell	0.13	0.456
GMCSF	0.304	-0.098
IFNab	0.532	-0.789
IFNg	0.019	-0.468
IFNg_GMCSF1	-0.465	-0.55
Rv1432_day32	0.146	0.494
Rv1565c_day32	-0.123	0.1
secA2_input	0.711	-0.211
delta_Rv3594	-0.285	0.173
delta_Rv3717	-0.691	0.793
delta_Rv3811	-0.149	1.16
delta_Rv0954	-0.589	-0.333
PonA1	-0.564	0.323
EccD1_KO	0.707	0.592
EspI_KO	0.197	-1.44
PE35_KO	0.732	-0.324
PPE68_KO	0.387	-0.985
glycerol2	0.199	0.136
lignocerate	-0.086	0.026
oleate	0.42	0.583
phosphatidylcholine	0.147	0.413
acetate	-0.153	-0.949
glucAc	-0.32	-0.341
Rv0950ko	0.308	0.965
Rv1096ko	0.826	0.564
Rv3684ko	0.626	1.369
delta_otsA_trehalose	1.484	1.962