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 Rv0021c/-:

update plot	correlation	link to info on gene
Rv3762c/-	(cc=0.5238)	info on Rv3762c/-
Rv0478/deoC	(cc=0.5064)	info on Rv0478/deoC
Rv1604/impA	(cc=0.4979)	info on Rv1604/impA
Rv1207/folP2	(cc=0.4929)	info on Rv1207/folP2
Rv3174/-	(cc=0.4526)	info on Rv3174/-
Rv3151/nuoG	(cc=0.4481)	info on Rv3151/nuoG
Rv1579c/-	(cc=0.4439)	info on Rv1579c/-
Rv3523/ltp3	(cc=0.4369)	info on Rv3523/ltp3
Rv3409c/choD	(cc=0.4352)	info on Rv3409c/choD
Rv3566A/-	(cc=0.4301)	info on Rv3566A/-

Correlation of Rv0021c/- with Rv3566A/-

Normalized LFCs for Rv0021c/-:
(description and provenance of datasets)

	Rv0021c/-	Rv3566A/-
Fe_supp_jason_reseq	-0.324	0.256
low_pH_jason_reseq	-0.072	-0.935
NO_jason_reseq	-0.131	0.263
B6_jason_reseq	-0.04	-1.356
MHCII_jason_reseq	0.061	-0.944
Isoniazid02	1.467	1.288
Rifampicin4	0.447	0.812
Ethambutol3	1.045	0.471
Meropenem3	1.29	0.128
Vancomycin16	0.456	2.014
Rv2680_day32	0.103	0.0
H37Rv_KO_MarP	0.315	0.967
hypoxia_3wks	0.275	0.478
hypoxia_6wks	0.71	-0.739
glycerol	0.674	-0.206
cholesterol	1.363	1.031
AJ	0.306	-0.57
Bibs02	0.506	-2.787
Bibs02c	0.681	1.687
BL6	0.823	1.022
BL6a	0.679	1.848
BXD01	0.92	1.021
BXD010	0.587	1.033
BXD011	0.37	-0.2
BXD03	0.584	0.93
BXD04	1.742	0.94
BXD05	0.876	1.419
BXD06	0.55	0.418
BXD07	0.676	1.069
BXD08	0.9	1.728
BXD09	0.691	1.734
CAST	-0.082	2.261
CCcont	0.592	1.393
DS01	0.601	0.652
DS02	0.947	1.85
DS04	0.022	-0.663
DS0c	0.354	1.724
GP01	-0.219	-1.505
GP02	0.071	-1.04
GP0c	0.467	-1.982
NOD	-0.386	-0.112
NZO	-0.171	1.345
PWK	-0.07	-1.469
H37Rv_KO_CtpC	-0.181	2.155
H37Rv_KO_CtpD	1.0	1.858
H37Rv_KO_Rv1272	0.12	1.525
H37Rv_KO_SugABC	0.817	-1.321
H37Rv_KO_MbtN	-0.568	-0.628
Trans05	0.847	1.166
macrophage_unactivated	0.161	-2.386
IL1	0.113	0.392
Rapamycin	0.249	0.209
Tcell	0.365	-0.775
GMCSF	0.539	0.15
IFNab	0.39	-1.061
IFNg	0.086	-0.158
IFNg_GMCSF1	0.481	-0.185
Rv1432_day32	0.516	-0.489
Rv1565c_day32	-0.239	0.0
secA2_input	0.297	1.196
delta_Rv3594	-0.587	-0.3
delta_Rv3717	-0.024	-0.6
delta_Rv3811	-0.116	0.309
delta_Rv0954	0.296	-0.08
PonA1	0.029	-2.028
EccD1_KO	-0.161	-1.25
EspI_KO	-0.776	-2.444
PE35_KO	-0.77	-1.916
PPE68_KO	-0.685	-2.268
glycerol2	0.712	-0.322
lignocerate	0.528	-1.05
oleate	0.615	0.014
phosphatidylcholine	0.445	-0.766
acetate	0.309	-0.291
glucAc	0.39	-1.785
Rv0950ko	0.642	0.25
Rv1096ko	0.163	-2.615
Rv3684ko	0.982	0.465
delta_otsA_trehalose	0.199	1.417