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 Rv1194c/-

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

	Rv0274/-	Rv1194c/-
Fe_supp_jason_reseq	-0.335	-0.549
low_pH_jason_reseq	-0.475	0.231
NO_jason_reseq	-1.158	-1.759
B6_jason_reseq	-1.307	-0.604
MHCII_jason_reseq	0.341	0.829
Isoniazid02	-0.295	0.26
Rifampicin4	0.032	0.558
Ethambutol3	-0.119	-0.339
Meropenem3	-0.178	-0.503
Vancomycin16	0.093	0.244
Rv2680_day32	-1.744	-0.333
H37Rv_KO_MarP	0.286	-0.387
hypoxia_3wks	-0.351	0.243
hypoxia_6wks	-0.129	0.065
glycerol	0.856	1.906
cholesterol	0.537	1.25
AJ	0.664	1.062
Bibs02	0.799	0.775
Bibs02c	-0.602	0.517
BL6	0.594	0.99
BL6a	-0.287	0.595
BXD01	-0.326	-0.169
BXD010	0.394	-0.117
BXD011	0.012	0.416
BXD03	-1.335	0.804
BXD04	0.835	0.796
BXD05	0.663	0.69
BXD06	0.495	0.33
BXD07	-0.33	0.159
BXD08	0.52	0.023
BXD09	0.066	0.943
CAST	0.087	-0.082
CCcont	0.056	0.888
DS01	0.322	1.983
DS02	0.963	0.844
DS04	0.921	1.456
DS0c	0.729	1.609
GP01	-0.926	0.918
GP02	0.871	0.261
GP0c	1.096	0.321
NOD	0.488	0.428
NZO	0.058	1.043
PWK	-0.374	1.067
H37Rv_KO_CtpC	0.404	-1.294
H37Rv_KO_CtpD	-0.846	0.278
H37Rv_KO_Rv1272	-0.499	1.561
H37Rv_KO_SugABC	1.054	1.002
H37Rv_KO_MbtN	-0.727	0.135
Trans05	-0.672	0.628
macrophage_unactivated	0.211	0.347
IL1	-0.94	-1.447
Rapamycin	-1.126	-0.043
Tcell	-1.033	-2.294
GMCSF	0.486	-0.396
IFNab	-0.85	1.608
IFNg	-1.048	-0.711
IFNg_GMCSF1	0.0	-0.782
Rv1432_day32	-0.591	-0.24
Rv1565c_day32	-0.242	0.438
secA2_input	0.028	0.28
delta_Rv3594	-1.123	0.254
delta_Rv3717	-1.169	-0.508
delta_Rv3811	-0.436	0.07
delta_Rv0954	-0.592	-0.578
PonA1	-0.225	0.09
EccD1_KO	-0.24	0.408
EspI_KO	0.165	1.184
PE35_KO	0.674	0.785
PPE68_KO	1.43	0.118
glycerol2	-0.411	0.535
lignocerate	-0.469	-0.356
oleate	-0.19	-1.474
phosphatidylcholine	-0.59	0.31
acetate	-0.396	-0.712
glucAc	-0.856	-0.865
Rv0950ko	0.703	0.0
Rv1096ko	0.784	0.296
Rv3684ko	0.793	-0.144
delta_otsA_trehalose	-0.751	0.759