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 Rv1105/-:

update plot	correlation	link to info on gene
Rv0161/-	(cc=0.5405)	info on Rv0161/-
Rv3378c/-	(cc=0.5388)	info on Rv3378c/-
Rv0025/-	(cc=0.5008)	info on Rv0025/-
Rv0075/-	(cc=0.4913)	info on Rv0075/-
Rv1616/-	(cc=0.4877)	info on Rv1616/-
Rv0877/-	(cc=0.4755)	info on Rv0877/-
Rv0293c/-	(cc=0.4682)	info on Rv0293c/-
Rv1290c/-	(cc=0.4647)	info on Rv1290c/-
Rv1072/-	(cc=0.4526)	info on Rv1072/-
Rv3884c/eccA2	(cc=0.4493)	info on Rv3884c/eccA2

Correlation of Rv1105/- with Rv0161/-

Normalized LFCs for Rv1105/-:
(description and provenance of datasets)

	Rv1105/-	Rv0161/-
Fe_supp_jason_reseq	-0.368	-0.933
low_pH_jason_reseq	-0.644	-1.226
NO_jason_reseq	0.21	0.173
B6_jason_reseq	0.503	-0.512
MHCII_jason_reseq	0.521	-0.645
Isoniazid02	1.675	0.208
Rifampicin4	-0.238	0.43
Ethambutol3	2.927	-0.118
Meropenem3	0.086	0.211
Vancomycin16	0.342	0.682
Rv2680_day32	0.789	1.308
H37Rv_KO_MarP	-0.332	-0.023
hypoxia_3wks	1.739	1.228
hypoxia_6wks	1.693	1.865
glycerol	-0.284	-1.172
cholesterol	-0.296	0.027
AJ	0.239	-0.728
Bibs02	0.78	-0.348
Bibs02c	0.505	0.194
BL6	0.725	0.639
BL6a	0.834	1.012
BXD01	1.447	0.769
BXD010	0.759	0.798
BXD011	1.272	0.588
BXD03	0.604	0.674
BXD04	1.217	1.686
BXD05	0.944	0.671
BXD06	1.086	0.458
BXD07	0.992	0.802
BXD08	0.646	1.42
BXD09	0.869	0.89
CAST	0.053	-1.044
CCcont	0.322	0.763
DS01	1.056	-0.092
DS02	0.066	-0.315
DS04	1.66	-0.415
DS0c	0.762	-0.363
GP01	-0.072	-0.143
GP02	0.074	-0.121
GP0c	0.214	0.517
NOD	0.675	0.168
NZO	0.061	0.685
PWK	1.047	0.182
H37Rv_KO_CtpC	0.013	0.848
H37Rv_KO_CtpD	-0.039	0.816
H37Rv_KO_Rv1272	0.214	1.425
H37Rv_KO_SugABC	-0.822	-1.398
H37Rv_KO_MbtN	0.279	-0.407
Trans05	0.847	1.704
macrophage_unactivated	-0.265	-0.65
IL1	-0.605	-0.854
Rapamycin	-0.555	-0.396
Tcell	0.701	-0.182
GMCSF	-1.344	-0.673
IFNab	-1.339	-0.212
IFNg	-0.265	-0.037
IFNg_GMCSF1	-1.568	-0.647
Rv1432_day32	-0.541	-0.164
Rv1565c_day32	-0.981	-0.938
secA2_input	-0.947	-1.047
delta_Rv3594	-0.281	-0.307
delta_Rv3717	-0.721	-0.112
delta_Rv3811	0.051	0.427
delta_Rv0954	0.751	0.143
PonA1	-0.807	-0.547
EccD1_KO	0.707	0.243
EspI_KO	0.516	0.565
PE35_KO	0.219	-0.181
PPE68_KO	0.47	0.048
glycerol2	0.394	0.247
lignocerate	-0.123	-0.867
oleate	0.316	0.472
phosphatidylcholine	0.27	-0.282
acetate	-0.462	-0.161
glucAc	-0.718	-0.143
Rv0950ko	0.929	0.0
Rv1096ko	0.28	0.917
Rv3684ko	1.045	0.802
delta_otsA_trehalose	-1.875	-0.413