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 Rv3085/-

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

	Rv0769/-	Rv3085/-
Fe_supp_jason_reseq	0.612	1.339
low_pH_jason_reseq	-0.53	1.603
NO_jason_reseq	0.722	2.46
B6_jason_reseq	0.533	-0.895
MHCII_jason_reseq	0.951	2.261
Isoniazid02	-0.356	0.281
Rifampicin4	-1.151	0.355
Ethambutol3	0.131	0.82
Meropenem3	0.47	0.979
Vancomycin16	-0.523	1.73
Rv2680_day32	0.816	1.645
H37Rv_KO_MarP	0.217	0.143
hypoxia_3wks	-0.439	0.108
hypoxia_6wks	0.188	0.741
glycerol	-0.461	1.429
cholesterol	0.061	-1.423
AJ	-0.264	0.217
Bibs02	-0.596	0.815
Bibs02c	-1.449	-2.145
BL6	0.267	0.976
BL6a	0.184	0.752
BXD01	0.027	0.16
BXD010	0.144	0.0
BXD011	0.191	1.53
BXD03	0.241	1.321
BXD04	0.733	2.211
BXD05	0.713	0.774
BXD06	0.766	1.252
BXD07	0.284	0.77
BXD08	0.722	1.383
BXD09	1.099	0.517
CAST	0.741	-0.077
CCcont	0.838	0.873
DS01	-0.051	-1.098
DS02	-0.328	-1.438
DS04	-1.226	-1.989
DS0c	-0.3	1.348
GP01	-0.84	-0.084
GP02	-0.146	-1.456
GP0c	-0.297	-0.391
NOD	0.024	-0.579
NZO	-0.251	-1.199
PWK	0.35	0.031
H37Rv_KO_CtpC	1.105	0.481
H37Rv_KO_CtpD	-0.239	-2.11
H37Rv_KO_Rv1272	-0.127	0.503
H37Rv_KO_SugABC	-0.1	-1.435
H37Rv_KO_MbtN	-0.069	-1.428
Trans05	-0.028	0.776
macrophage_unactivated	0.499	-0.758
IL1	0.605	0.374
Rapamycin	0.187	-0.025
Tcell	0.033	-1.01
GMCSF	0.214	-0.201
IFNab	0.508	-0.786
IFNg	0.216	-0.321
IFNg_GMCSF1	0.698	-0.518
Rv1432_day32	0.0	3.341
Rv1565c_day32	0.235	0.0
secA2_input	0.668	1.373
delta_Rv3594	0.583	-2.073
delta_Rv3717	0.424	0.863
delta_Rv3811	-0.271	-0.727
delta_Rv0954	-0.504	0.504
PonA1	-0.479	-3.602
EccD1_KO	0.138	-0.076
EspI_KO	1.708	2.284
PE35_KO	0.522	0.63
PPE68_KO	0.806	0.147
glycerol2	0.705	1.033
lignocerate	1.109	1.545
oleate	-0.793	-1.955
phosphatidylcholine	0.392	1.153
acetate	1.084	1.782
glucAc	1.095	1.663
Rv0950ko	0.199	-1.269
Rv1096ko	0.962	-0.555
Rv3684ko	1.176	-0.976
delta_otsA_trehalose	2.083	1.953