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 Rv1362c/-:

update plot	correlation	link to info on gene
Rv0088/-	(cc=0.5806)	info on Rv0088/-
Rv0844c/narL	(cc=0.5668)	info on Rv0844c/narL
Rv3407/vapB47	(cc=0.5364)	info on Rv3407/vapB47
Rv3628/ppa	(cc=0.5282)	info on Rv3628/ppa
Rv2330c/lppP	(cc=0.4974)	info on Rv2330c/lppP
Rv0198c/zmp1	(cc=0.4929)	info on Rv0198c/zmp1
Rv1021/-	(cc=0.4904)	info on Rv1021/-
Rv3429/PPE59	(cc=0.488)	info on Rv3429/PPE59
Rv0814c/sseC2	(cc=0.4811)	info on Rv0814c/sseC2
Rv1785c/cyp143	(cc=0.4683)	info on Rv1785c/cyp143

Correlation of Rv1362c/- with Rv3407/vapB47

Normalized LFCs for Rv1362c/-:
(description and provenance of datasets)

	Rv1362c/-	Rv3407/vapB47
Fe_supp_jason_reseq	0.167	1.306
low_pH_jason_reseq	-0.726	-0.599
NO_jason_reseq	0.142	0.268
B6_jason_reseq	-0.81	-0.186
MHCII_jason_reseq	-0.066	-0.317
Isoniazid02	0.162	-0.116
Rifampicin4	-0.141	0.384
Ethambutol3	1.469	2.458
Meropenem3	-0.062	0.599
Vancomycin16	0.164	0.618
Rv2680_day32	0.58	-0.364
H37Rv_KO_MarP	0.244	0.809
hypoxia_3wks	0.486	0.387
hypoxia_6wks	0.528	0.764
glycerol	0.426	2.676
cholesterol	0.353	0.628
AJ	0.602	1.103
Bibs02	0.126	1.205
Bibs02c	0.559	0.421
BL6	0.992	0.601
BL6a	0.65	1.481
BXD01	0.658	0.726
BXD010	0.966	0.576
BXD011	1.5	0.39
BXD03	0.587	0.914
BXD04	0.176	0.613
BXD05	0.411	0.619
BXD06	0.542	1.094
BXD07	0.233	0.637
BXD08	0.514	0.598
BXD09	0.296	0.796
CAST	-0.023	0.402
CCcont	0.726	1.168
DS01	-0.85	0.233
DS02	-0.751	0.755
DS04	0.472	1.436
DS0c	-0.184	1.664
GP01	0.192	-0.763
GP02	0.739	2.058
GP0c	-0.026	0.76
NOD	-0.841	0.036
NZO	0.387	0.887
PWK	0.445	0.381
H37Rv_KO_CtpC	0.368	0.261
H37Rv_KO_CtpD	0.993	1.042
H37Rv_KO_Rv1272	1.098	0.999
H37Rv_KO_SugABC	0.99	0.083
H37Rv_KO_MbtN	-0.582	-0.246
Trans05	0.732	0.899
macrophage_unactivated	0.338	0.196
IL1	0.866	-0.682
Rapamycin	0.193	-0.918
Tcell	-0.186	-0.153
GMCSF	0.502	-0.845
IFNab	0.296	-0.178
IFNg	-0.203	-0.58
IFNg_GMCSF1	0.415	-0.701
Rv1432_day32	-1.027	-0.137
Rv1565c_day32	0.352	0.37
secA2_input	-0.041	-0.712
delta_Rv3594	-0.858	-0.395
delta_Rv3717	-1.19	-1.515
delta_Rv3811	-0.483	-1.126
delta_Rv0954	-0.647	-1.125
PonA1	-0.822	-0.569
EccD1_KO	-0.303	-0.145
EspI_KO	-0.103	0.436
PE35_KO	0.694	1.353
PPE68_KO	0.538	1.382
glycerol2	0.918	0.89
lignocerate	0.838	1.445
oleate	0.753	0.577
phosphatidylcholine	0.881	0.881
acetate	0.866	1.034
glucAc	0.842	0.389
Rv0950ko	-0.169	0.184
Rv1096ko	-1.071	-0.573
Rv3684ko	-1.706	-0.157
delta_otsA_trehalose	-0.163	-1.215