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 Rv3520c/-:

update plot	correlation	link to info on gene
Rv2007c/fdxA	(cc=0.6244)	info on Rv2007c/fdxA
Rv0089/-	(cc=0.5559)	info on Rv0089/-
Rv2681/-	(cc=0.5543)	info on Rv2681/-
Rv3058c/-	(cc=0.5502)	info on Rv3058c/-
Rv0963c/-	(cc=0.5445)	info on Rv0963c/-
Rv3468c/-	(cc=0.5379)	info on Rv3468c/-
Rv1880c/cyp140	(cc=0.5333)	info on Rv1880c/cyp140
Rv2237A/-	(cc=0.5328)	info on Rv2237A/-
Rv3819/-	(cc=0.5244)	info on Rv3819/-
Rv1033c/trcR	(cc=0.5121)	info on Rv1033c/trcR

Correlation of Rv3520c/- with Rv3058c/-

Normalized LFCs for Rv3520c/-:
(description and provenance of datasets)

	Rv3520c/-	Rv3058c/-
Fe_supp_jason_reseq	0.009	-0.339
low_pH_jason_reseq	-0.442	-1.275
NO_jason_reseq	-0.171	-1.42
B6_jason_reseq	-0.38	-1.367
MHCII_jason_reseq	0.061	-0.287
Isoniazid02	-0.047	-2.551
Rifampicin4	-0.325	-1.375
Ethambutol3	-0.304	1.008
Meropenem3	-0.229	-0.89
Vancomycin16	0.133	-1.971
Rv2680_day32	0.072	-1.059
H37Rv_KO_MarP	0.816	2.314
hypoxia_3wks	-0.104	-0.367
hypoxia_6wks	-0.706	-0.134
glycerol	0.035	-1.219
cholesterol	-0.041	-2.073
AJ	-0.124	0.255
Bibs02	-0.032	-1.526
Bibs02c	0.553	-1.629
BL6	0.064	-2.223
BL6a	0.133	-1.871
BXD01	-0.26	-2.739
BXD010	-0.552	-2.712
BXD011	-0.597	-2.487
BXD03	-0.181	-1.704
BXD04	-0.026	-2.414
BXD05	-0.706	-2.911
BXD06	-0.278	-3.679
BXD07	-0.575	-3.23
BXD08	-0.371	-1.966
BXD09	-0.803	-4.27
CAST	-0.098	0.46
CCcont	-0.053	-0.791
DS01	-0.026	-1.879
DS02	-0.241	-2.874
DS04	-0.069	-3.405
DS0c	0.038	-2.72
GP01	-0.512	-2.006
GP02	-1.016	-2.73
GP0c	-1.122	-3.106
NOD	0.166	0.672
NZO	0.405	-0.623
PWK	-0.186	0.51
H37Rv_KO_CtpC	-0.18	-0.211
H37Rv_KO_CtpD	-0.33	-1.019
H37Rv_KO_Rv1272	0.177	-2.109
H37Rv_KO_SugABC	0.145	-3.448
H37Rv_KO_MbtN	-0.259	-2.442
Trans05	-0.115	-2.637
macrophage_unactivated	-0.366	-1.231
IL1	-0.718	-1.744
Rapamycin	-0.546	-1.66
Tcell	0.222	-0.873
GMCSF	0.198	-1.164
IFNab	-0.284	-3.516
IFNg	-0.497	-1.625
IFNg_GMCSF1	-0.11	-1.91
Rv1432_day32	-0.378	-2.632
Rv1565c_day32	0.755	0.069
secA2_input	-0.776	0.609
delta_Rv3594	-0.084	-1.138
delta_Rv3717	-0.932	-2.022
delta_Rv3811	-0.656	-1.553
delta_Rv0954	-0.063	0.774
PonA1	0.257	2.176
EccD1_KO	0.372	-0.398
EspI_KO	0.379	-0.22
PE35_KO	0.061	0.831
PPE68_KO	-0.016	0.666
glycerol2	0.324	4.618
lignocerate	0.952	2.532
oleate	0.255	0.679
phosphatidylcholine	0.676	5.238
acetate	0.475	0.53
glucAc	0.499	-0.159
Rv0950ko	0.905	0.362
Rv1096ko	0.368	-0.09
Rv3684ko	0.596	0.282
delta_otsA_trehalose	1.04	-0.217