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 Rv0274/-:

update plot	correlation	link to info on gene
Rv2840c/-	(cc=0.4477)	info on Rv2840c/-
Rv3407/vapB47	(cc=0.4222)	info on Rv3407/vapB47
Rv1582c/-	(cc=0.4137)	info on Rv1582c/-
Rv0897c/-	(cc=0.4111)	info on Rv0897c/-
Rv0557/mgtA	(cc=0.4018)	info on Rv0557/mgtA
Rv2571c/-	(cc=0.3995)	info on Rv2571c/-
Rv3026c/-	(cc=0.3969)	info on Rv3026c/-
Rv1067c/PE_PGRS19	(cc=0.3918)	info on Rv1067c/PE_PGRS19
Rv1194c/-	(cc=0.3885)	info on Rv1194c/-
Rv2825c/-	(cc=0.3871)	info on Rv2825c/-

Correlation of Rv0274/- with Rv3407/vapB47

Normalized LFCs for Rv0274/-:
(description and provenance of datasets)

	Rv0274/-	Rv3407/vapB47
Fe_supp_jason_reseq	-0.335	1.306
low_pH_jason_reseq	-0.475	-0.599
NO_jason_reseq	-1.158	0.268
B6_jason_reseq	-1.307	-0.186
MHCII_jason_reseq	0.341	-0.317
Isoniazid02	-0.295	-0.116
Rifampicin4	0.032	0.384
Ethambutol3	-0.119	2.458
Meropenem3	-0.178	0.599
Vancomycin16	0.093	0.618
Rv2680_day32	-1.744	-0.364
H37Rv_KO_MarP	0.286	0.809
hypoxia_3wks	-0.351	0.387
hypoxia_6wks	-0.129	0.764
glycerol	0.856	2.676
cholesterol	0.537	0.628
AJ	0.664	1.103
Bibs02	0.799	1.205
Bibs02c	-0.602	0.421
BL6	0.594	0.601
BL6a	-0.287	1.481
BXD01	-0.326	0.726
BXD010	0.394	0.576
BXD011	0.012	0.39
BXD03	-1.335	0.914
BXD04	0.835	0.613
BXD05	0.663	0.619
BXD06	0.495	1.094
BXD07	-0.33	0.637
BXD08	0.52	0.598
BXD09	0.066	0.796
CAST	0.087	0.402
CCcont	0.056	1.168
DS01	0.322	0.233
DS02	0.963	0.755
DS04	0.921	1.436
DS0c	0.729	1.664
GP01	-0.926	-0.763
GP02	0.871	2.058
GP0c	1.096	0.76
NOD	0.488	0.036
NZO	0.058	0.887
PWK	-0.374	0.381
H37Rv_KO_CtpC	0.404	0.261
H37Rv_KO_CtpD	-0.846	1.042
H37Rv_KO_Rv1272	-0.499	0.999
H37Rv_KO_SugABC	1.054	0.083
H37Rv_KO_MbtN	-0.727	-0.246
Trans05	-0.672	0.899
macrophage_unactivated	0.211	0.196
IL1	-0.94	-0.682
Rapamycin	-1.126	-0.918
Tcell	-1.033	-0.153
GMCSF	0.486	-0.845
IFNab	-0.85	-0.178
IFNg	-1.048	-0.58
IFNg_GMCSF1	0.0	-0.701
Rv1432_day32	-0.591	-0.137
Rv1565c_day32	-0.242	0.37
secA2_input	0.028	-0.712
delta_Rv3594	-1.123	-0.395
delta_Rv3717	-1.169	-1.515
delta_Rv3811	-0.436	-1.126
delta_Rv0954	-0.592	-1.125
PonA1	-0.225	-0.569
EccD1_KO	-0.24	-0.145
EspI_KO	0.165	0.436
PE35_KO	0.674	1.353
PPE68_KO	1.43	1.382
glycerol2	-0.411	0.89
lignocerate	-0.469	1.445
oleate	-0.19	0.577
phosphatidylcholine	-0.59	0.881
acetate	-0.396	1.034
glucAc	-0.856	0.389
Rv0950ko	0.703	0.184
Rv1096ko	0.784	-0.573
Rv3684ko	0.793	-0.157
delta_otsA_trehalose	-0.751	-1.215