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 Rv2060/-

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

	Rv0769/-	Rv2060/-
Fe_supp_jason_reseq	0.612	-0.103
low_pH_jason_reseq	-0.53	-1.673
NO_jason_reseq	0.722	-0.601
B6_jason_reseq	0.533	-3.069
MHCII_jason_reseq	0.951	-0.784
Isoniazid02	-0.356	3.405
Rifampicin4	-1.151	0.969
Ethambutol3	0.131	2.606
Meropenem3	0.47	0.289
Vancomycin16	-0.523	-0.52
Rv2680_day32	0.816	0.249
H37Rv_KO_MarP	0.217	-0.471
hypoxia_3wks	-0.439	-1.894
hypoxia_6wks	0.188	-0.393
glycerol	-0.461	-1.549
cholesterol	0.061	-0.229
AJ	-0.264	-1.321
Bibs02	-0.596	-3.076
Bibs02c	-1.449	-0.182
BL6	0.267	1.112
BL6a	0.184	1.633
BXD01	0.027	1.966
BXD010	0.144	1.646
BXD011	0.191	0.053
BXD03	0.241	0.455
BXD04	0.733	2.675
BXD05	0.713	0.493
BXD06	0.766	2.147
BXD07	0.284	0.883
BXD08	0.722	2.281
BXD09	1.099	0.813
CAST	0.741	0.844
CCcont	0.838	2.499
DS01	-0.051	-1.916
DS02	-0.328	-1.238
DS04	-1.226	-2.311
DS0c	-0.3	-3.432
GP01	-0.84	-1.661
GP02	-0.146	-1.171
GP0c	-0.297	-0.446
NOD	0.024	-0.838
NZO	-0.251	-2.51
PWK	0.35	0.631
H37Rv_KO_CtpC	1.105	-2.423
H37Rv_KO_CtpD	-0.239	1.775
H37Rv_KO_Rv1272	-0.127	-0.484
H37Rv_KO_SugABC	-0.1	-1.666
H37Rv_KO_MbtN	-0.069	-1.631
Trans05	-0.028	1.218
macrophage_unactivated	0.499	3.671
IL1	0.605	1.619
Rapamycin	0.187	0.733
Tcell	0.033	3.874
GMCSF	0.214	-0.755
IFNab	0.508	0.493
IFNg	0.216	-1.16
IFNg_GMCSF1	0.698	-0.28
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.235	0.855
secA2_input	0.668	-1.227
delta_Rv3594	0.583	1.146
delta_Rv3717	0.424	2.154
delta_Rv3811	-0.271	0.451
delta_Rv0954	-0.504	-0.549
PonA1	-0.479	-2.016
EccD1_KO	0.138	2.23
EspI_KO	1.708	1.266
PE35_KO	0.522	3.241
PPE68_KO	0.806	4.62
glycerol2	0.705	1.84
lignocerate	1.109	2.661
oleate	-0.793	-1.843
phosphatidylcholine	0.392	2.134
acetate	1.084	1.754
glucAc	1.095	1.848
Rv0950ko	0.199	3.784
Rv1096ko	0.962	2.494
Rv3684ko	1.176	-0.314
delta_otsA_trehalose	2.083	0.818