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 Rv3382c/lytB1

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

	Rv1968/mce3C	Rv3382c/lytB1
Fe_supp_jason_reseq	0.185	-0.537
low_pH_jason_reseq	-0.517	-0.453
NO_jason_reseq	1.066	-0.129
B6_jason_reseq	0.038	-0.782
MHCII_jason_reseq	-0.863	-0.265
Isoniazid02	0.249	0.4
Rifampicin4	0.0	-0.027
Ethambutol3	1.094	0.499
Meropenem3	0.014	1.751
Vancomycin16	-0.064	0.501
Rv2680_day32	-2.687	-2.159
H37Rv_KO_MarP	-0.58	-0.384
hypoxia_3wks	-0.299	0.128
hypoxia_6wks	-1.171	-0.47
glycerol	0.237	0.531
cholesterol	0.461	0.472
AJ	-0.45	0.126
Bibs02	-0.434	1.02
Bibs02c	0.311	1.322
BL6	0.663	0.745
BL6a	0.294	1.578
BXD01	-0.967	0.16
BXD010	-0.023	0.693
BXD011	0.78	1.176
BXD03	0.955	1.089
BXD04	0.344	0.461
BXD05	1.175	1.409
BXD06	0.604	0.929
BXD07	0.659	0.809
BXD08	0.0	0.705
BXD09	0.833	0.93
CAST	-0.169	0.719
CCcont	0.103	0.315
DS01	0.625	0.291
DS02	0.959	0.507
DS04	-0.18	-0.271
DS0c	0.184	0.707
GP01	0.481	-0.347
GP02	0.534	0.885
GP0c	0.48	-0.012
NOD	0.155	1.061
NZO	-1.03	0.0
PWK	0.843	0.159
H37Rv_KO_CtpC	1.191	0.595
H37Rv_KO_CtpD	1.252	2.104
H37Rv_KO_Rv1272	1.119	0.912
H37Rv_KO_SugABC	-0.072	0.798
H37Rv_KO_MbtN	0.036	1.1
Trans05	0.398	1.041
macrophage_unactivated	0.862	0.17
IL1	1.794	0.089
Rapamycin	0.0	0.798
Tcell	-0.355	-0.244
GMCSF	0.62	0.422
IFNab	1.082	0.599
IFNg	1.08	0.893
IFNg_GMCSF1	0.936	-0.632
Rv1432_day32	1.368	-0.155
Rv1565c_day32	0.436	0.785
secA2_input	-0.504	-1.34
delta_Rv3594	1.095	-0.396
delta_Rv3717	0.21	-1.029
delta_Rv3811	0.796	-0.442
delta_Rv0954	0.638	-0.384
PonA1	0.309	-0.81
EccD1_KO	-1.352	-1.033
EspI_KO	0.194	-0.394
PE35_KO	-0.035	-0.324
PPE68_KO	-0.675	-0.646
glycerol2	-0.82	-0.671
lignocerate	-0.1	-0.872
oleate	-0.829	0.699
phosphatidylcholine	-0.508	-0.581
acetate	1.38	-0.04
glucAc	0.81	-1.299
Rv0950ko	0.103	0.54
Rv1096ko	0.202	-0.042
Rv3684ko	0.531	-0.285
delta_otsA_trehalose	-0.073	0.068