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 Rv2825c/-

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

	Rv0274/-	Rv2825c/-
Fe_supp_jason_reseq	-0.335	0.169
low_pH_jason_reseq	-0.475	0.741
NO_jason_reseq	-1.158	-1.121
B6_jason_reseq	-1.307	-1.759
MHCII_jason_reseq	0.341	-1.171
Isoniazid02	-0.295	0.281
Rifampicin4	0.032	1.394
Ethambutol3	-0.119	0.34
Meropenem3	-0.178	1.792
Vancomycin16	0.093	0.629
Rv2680_day32	-1.744	0.0
H37Rv_KO_MarP	0.286	0.279
hypoxia_3wks	-0.351	0.961
hypoxia_6wks	-0.129	0.384
glycerol	0.856	-0.184
cholesterol	0.537	0.696
AJ	0.664	-0.212
Bibs02	0.799	0.294
Bibs02c	-0.602	-0.399
BL6	0.594	2.513
BL6a	-0.287	1.6
BXD01	-0.326	1.292
BXD010	0.394	0.385
BXD011	0.012	0.68
BXD03	-1.335	0.856
BXD04	0.835	1.792
BXD05	0.663	2.578
BXD06	0.495	1.963
BXD07	-0.33	2.353
BXD08	0.52	1.837
BXD09	0.066	1.941
CAST	0.087	1.346
CCcont	0.056	1.146
DS01	0.322	-0.45
DS02	0.963	0.792
DS04	0.921	3.195
DS0c	0.729	0.506
GP01	-0.926	-0.188
GP02	0.871	-0.159
GP0c	1.096	0.391
NOD	0.488	0.361
NZO	0.058	0.465
PWK	-0.374	0.315
H37Rv_KO_CtpC	0.404	1.957
H37Rv_KO_CtpD	-0.846	-0.241
H37Rv_KO_Rv1272	-0.499	1.195
H37Rv_KO_SugABC	1.054	4.445
H37Rv_KO_MbtN	-0.727	1.122
Trans05	-0.672	0.764
macrophage_unactivated	0.211	-1.253
IL1	-0.94	0.922
Rapamycin	-1.126	1.086
Tcell	-1.033	-0.267
GMCSF	0.486	0.987
IFNab	-0.85	0.387
IFNg	-1.048	0.275
IFNg_GMCSF1	0.0	-0.534
Rv1432_day32	-0.591	0.0
Rv1565c_day32	-0.242	0.0
secA2_input	0.028	-1.327
delta_Rv3594	-1.123	1.53
delta_Rv3717	-1.169	1.403
delta_Rv3811	-0.436	3.557
delta_Rv0954	-0.592	2.149
PonA1	-0.225	1.526
EccD1_KO	-0.24	1.108
EspI_KO	0.165	0.0
PE35_KO	0.674	3.436
PPE68_KO	1.43	4.278
glycerol2	-0.411	-0.413
lignocerate	-0.469	-0.812
oleate	-0.19	-0.077
phosphatidylcholine	-0.59	-0.266
acetate	-0.396	-0.928
glucAc	-0.856	-2.419
Rv0950ko	0.703	0.0
Rv1096ko	0.784	2.135
Rv3684ko	0.793	2.414
delta_otsA_trehalose	-0.751	-2.372