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 Rv0769/-:

update plot	correlation	link to info on gene
Rv3165c/-	(cc=0.4668)	info on Rv3165c/-
Rv3852/hns	(cc=0.4594)	info on Rv3852/hns
Rv3085/-	(cc=0.4391)	info on Rv3085/-
Rv1219c/-	(cc=0.4199)	info on Rv1219c/-
Rv2240c/-	(cc=0.415)	info on Rv2240c/-
Rv1524/-	(cc=0.4132)	info on Rv1524/-
Rv1404/-	(cc=0.4128)	info on Rv1404/-
Rv2060/-	(cc=0.4017)	info on Rv2060/-
Rv0548c/menB	(cc=0.3924)	info on Rv0548c/menB
Rv1473A/-	(cc=0.3917)	info on Rv1473A/-

Correlation of Rv0769/- with Rv0548c/menB

Normalized LFCs for Rv0769/-:
(description and provenance of datasets)

	Rv0769/-	Rv0548c/menB
Fe_supp_jason_reseq	0.612	0.863
low_pH_jason_reseq	-0.53	-0.634
NO_jason_reseq	0.722	-0.995
B6_jason_reseq	0.533	1.11
MHCII_jason_reseq	0.951	1.082
Isoniazid02	-0.356	-0.268
Rifampicin4	-1.151	-0.872
Ethambutol3	0.131	-0.482
Meropenem3	0.47	-0.771
Vancomycin16	-0.523	-0.318
Rv2680_day32	0.816	0.0
H37Rv_KO_MarP	0.217	-0.684
hypoxia_3wks	-0.439	-0.255
hypoxia_6wks	0.188	0.37
glycerol	-0.461	0.192
cholesterol	0.061	-0.32
AJ	-0.264	0.113
Bibs02	-0.596	-1.236
Bibs02c	-1.449	-1.223
BL6	0.267	0.509
BL6a	0.184	0.442
BXD01	0.027	-0.653
BXD010	0.144	-0.364
BXD011	0.191	0.718
BXD03	0.241	1.618
BXD04	0.733	0.0
BXD05	0.713	0.065
BXD06	0.766	0.065
BXD07	0.284	0.0
BXD08	0.722	0.297
BXD09	1.099	0.37
CAST	0.741	-0.24
CCcont	0.838	0.449
DS01	-0.051	0.527
DS02	-0.328	-1.271
DS04	-1.226	-1.504
DS0c	-0.3	0.57
GP01	-0.84	-0.28
GP02	-0.146	-0.184
GP0c	-0.297	-0.369
NOD	0.024	-0.114
NZO	-0.251	1.004
PWK	0.35	1.269
H37Rv_KO_CtpC	1.105	-0.95
H37Rv_KO_CtpD	-0.239	-0.982
H37Rv_KO_Rv1272	-0.127	-0.953
H37Rv_KO_SugABC	-0.1	-0.768
H37Rv_KO_MbtN	-0.069	1.183
Trans05	-0.028	-0.883
macrophage_unactivated	0.499	2.001
IL1	0.605	-0.991
Rapamycin	0.187	-0.838
Tcell	0.033	0.313
GMCSF	0.214	0.375
IFNab	0.508	0.0
IFNg	0.216	0.834
IFNg_GMCSF1	0.698	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.235	0.0
secA2_input	0.668	0.0
delta_Rv3594	0.583	1.161
delta_Rv3717	0.424	-0.477
delta_Rv3811	-0.271	1.316
delta_Rv0954	-0.504	-0.49
PonA1	-0.479	0.717
EccD1_KO	0.138	1.365
EspI_KO	1.708	0.633
PE35_KO	0.522	0.939
PPE68_KO	0.806	1.328
glycerol2	0.705	0.161
lignocerate	1.109	0.712
oleate	-0.793	-0.373
phosphatidylcholine	0.392	0.311
acetate	1.084	0.69
glucAc	1.095	0.762
Rv0950ko	0.199	0.28
Rv1096ko	0.962	0.793
Rv3684ko	1.176	-0.327
delta_otsA_trehalose	2.083	0.564