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 Rv0523c/-:

update plot	correlation	link to info on gene
Rv0571c/-	(cc=0.5714)	info on Rv0571c/-
Rv1291c/-	(cc=0.553)	info on Rv1291c/-
Rv2766c/-	(cc=0.5213)	info on Rv2766c/-
Rv1192/-	(cc=0.5164)	info on Rv1192/-
Rv2920c/amt	(cc=0.5155)	info on Rv2920c/amt
Rv3607c/folB	(cc=0.5078)	info on Rv3607c/folB
Rv3395c/-	(cc=0.4927)	info on Rv3395c/-
Rv0569/-	(cc=0.4905)	info on Rv0569/-
Rv0899/ompA	(cc=0.4901)	info on Rv0899/ompA
Rv1075c/-	(cc=0.4884)	info on Rv1075c/-

Correlation of Rv0523c/- with Rv1291c/-

Normalized LFCs for Rv0523c/-:
(description and provenance of datasets)

	Rv0523c/-	Rv1291c/-
Fe_supp_jason_reseq	-0.737	-0.587
low_pH_jason_reseq	-0.475	0.646
NO_jason_reseq	0.249	2.956
B6_jason_reseq	0.596	2.722
MHCII_jason_reseq	1.125	3.045
Isoniazid02	0.204	-0.265
Rifampicin4	0.271	0.162
Ethambutol3	0.491	-0.344
Meropenem3	-0.151	-0.105
Vancomycin16	0.454	0.31
Rv2680_day32	0.057	1.533
H37Rv_KO_MarP	0.229	1.456
hypoxia_3wks	-0.423	-0.502
hypoxia_6wks	0.094	0.173
glycerol	-0.26	-0.398
cholesterol	-0.297	-0.358
AJ	-0.402	-0.422
Bibs02	0.109	-1.816
Bibs02c	0.444	-0.229
BL6	-0.94	-2.27
BL6a	-0.189	-0.762
BXD01	0.264	-1.445
BXD010	-0.055	-1.659
BXD011	-0.781	-2.209
BXD03	0.309	-2.802
BXD04	0.274	-1.034
BXD05	-0.477	-2.275
BXD06	0.149	-1.974
BXD07	-0.228	-2.312
BXD08	-0.323	-0.294
BXD09	-0.483	-2.166
CAST	0.194	-0.257
CCcont	-0.895	-2.402
DS01	0.616	-0.371
DS02	0.496	-1.126
DS04	-0.015	0.849
DS0c	0.256	-0.368
GP01	0.041	-3.926
GP02	-0.789	-2.833
GP0c	-0.481	-3.286
NOD	0.156	-0.555
NZO	-0.283	-0.579
PWK	0.674	-0.308
H37Rv_KO_CtpC	-1.086	-2.346
H37Rv_KO_CtpD	-0.982	-4.119
H37Rv_KO_Rv1272	-0.753	0.093
H37Rv_KO_SugABC	-1.402	-2.458
H37Rv_KO_MbtN	-1.265	-2.326
Trans05	0.237	-2.857
macrophage_unactivated	-0.59	-2.661
IL1	-0.816	-2.058
Rapamycin	-0.488	-1.755
Tcell	0.316	-0.205
GMCSF	-0.42	0.0
IFNab	-0.71	-1.246
IFNg	-0.957	-2.336
IFNg_GMCSF1	0.079	1.467
Rv1432_day32	0.233	-0.254
Rv1565c_day32	-1.567	-0.297
secA2_input	0.086	0.066
delta_Rv3594	0.948	0.991
delta_Rv3717	0.927	1.847
delta_Rv3811	0.631	3.618
delta_Rv0954	0.678	1.875
PonA1	0.0	2.223
EccD1_KO	0.747	0.536
EspI_KO	0.242	1.058
PE35_KO	-0.312	0.309
PPE68_KO	-0.026	-0.051
glycerol2	0.35	-0.801
lignocerate	0.239	-0.697
oleate	0.81	-0.098
phosphatidylcholine	0.283	-0.441
acetate	-0.17	-1.596
glucAc	-0.555	-0.826
Rv0950ko	-0.13	0.7
Rv1096ko	-0.024	0.383
Rv3684ko	0.056	-0.088
delta_otsA_trehalose	-0.739	0.026