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 Rv1968/mce3C:

update plot	correlation	link to info on gene
Rv2611c/-	(cc=0.4559)	info on Rv2611c/-
Rv2922c/smc	(cc=0.43)	info on Rv2922c/smc
Rv0926c/-	(cc=0.4206)	info on Rv0926c/-
Rv3815c/-	(cc=0.4205)	info on Rv3815c/-
Rv3382c/lytB1	(cc=0.4132)	info on Rv3382c/lytB1
Rv1918c/PPE35	(cc=0.4116)	info on Rv1918c/PPE35
Rv0204c/-	(cc=0.4089)	info on Rv0204c/-
Rv0559c/-	(cc=0.4071)	info on Rv0559c/-
Rv2102/-	(cc=0.3987)	info on Rv2102/-
Rv1548c/PPE21	(cc=0.3942)	info on Rv1548c/PPE21

Correlation of Rv1968/mce3C with Rv2922c/smc

Normalized LFCs for Rv1968/mce3C:
(description and provenance of datasets)

	Rv1968/mce3C	Rv2922c/smc
Fe_supp_jason_reseq	0.185	0.33
low_pH_jason_reseq	-0.517	0.44
NO_jason_reseq	1.066	0.244
B6_jason_reseq	0.038	-1.074
MHCII_jason_reseq	-0.863	-0.131
Isoniazid02	0.249	-0.706
Rifampicin4	0.0	0.079
Ethambutol3	1.094	-0.4
Meropenem3	0.014	0.231
Vancomycin16	-0.064	-1.512
Rv2680_day32	-2.687	-1.31
H37Rv_KO_MarP	-0.58	-0.737
hypoxia_3wks	-0.299	-0.475
hypoxia_6wks	-1.171	-0.426
glycerol	0.237	0.876
cholesterol	0.461	0.96
AJ	-0.45	0.069
Bibs02	-0.434	1.431
Bibs02c	0.311	0.823
BL6	0.663	1.235
BL6a	0.294	0.654
BXD01	-0.967	0.28
BXD010	-0.023	0.849
BXD011	0.78	0.578
BXD03	0.955	0.738
BXD04	0.344	1.696
BXD05	1.175	0.256
BXD06	0.604	0.552
BXD07	0.659	0.545
BXD08	0.0	0.15
BXD09	0.833	0.268
CAST	-0.169	-0.452
CCcont	0.103	1.059
DS01	0.625	1.331
DS02	0.959	0.944
DS04	-0.18	0.554
DS0c	0.184	1.332
GP01	0.481	-0.433
GP02	0.534	0.159
GP0c	0.48	-0.631
NOD	0.155	0.13
NZO	-1.03	-1.166
PWK	0.843	0.56
H37Rv_KO_CtpC	1.191	2.049
H37Rv_KO_CtpD	1.252	0.39
H37Rv_KO_Rv1272	1.119	0.979
H37Rv_KO_SugABC	-0.072	0.057
H37Rv_KO_MbtN	0.036	0.792
Trans05	0.398	0.402
macrophage_unactivated	0.862	0.48
IL1	1.794	-0.196
Rapamycin	0.0	-0.203
Tcell	-0.355	-0.326
GMCSF	0.62	0.478
IFNab	1.082	0.877
IFNg	1.08	0.329
IFNg_GMCSF1	0.936	0.386
Rv1432_day32	1.368	-0.085
Rv1565c_day32	0.436	0.21
secA2_input	-0.504	0.568
delta_Rv3594	1.095	0.532
delta_Rv3717	0.21	0.159
delta_Rv3811	0.796	0.039
delta_Rv0954	0.638	-1.258
PonA1	0.309	-0.335
EccD1_KO	-1.352	-1.154
EspI_KO	0.194	-0.171
PE35_KO	-0.035	-0.744
PPE68_KO	-0.675	-0.528
glycerol2	-0.82	-1.529
lignocerate	-0.1	-1.967
oleate	-0.829	-1.638
phosphatidylcholine	-0.508	-2.024
acetate	1.38	-0.258
glucAc	0.81	-0.732
Rv0950ko	0.103	-0.859
Rv1096ko	0.202	0.314
Rv3684ko	0.531	-0.521
delta_otsA_trehalose	-0.073	0.346