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 Rv1219c/-

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

	Rv0769/-	Rv1219c/-
Fe_supp_jason_reseq	0.612	1.178
low_pH_jason_reseq	-0.53	-0.997
NO_jason_reseq	0.722	0.0
B6_jason_reseq	0.533	0.641
MHCII_jason_reseq	0.951	0.293
Isoniazid02	-0.356	0.431
Rifampicin4	-1.151	-0.065
Ethambutol3	0.131	-0.103
Meropenem3	0.47	-0.307
Vancomycin16	-0.523	0.151
Rv2680_day32	0.816	-0.068
H37Rv_KO_MarP	0.217	0.817
hypoxia_3wks	-0.439	-0.156
hypoxia_6wks	0.188	0.119
glycerol	-0.461	-0.372
cholesterol	0.061	0.341
AJ	-0.264	-0.101
Bibs02	-0.596	-1.507
Bibs02c	-1.449	-2.093
BL6	0.267	0.013
BL6a	0.184	-0.748
BXD01	0.027	-0.705
BXD010	0.144	0.212
BXD011	0.191	0.188
BXD03	0.241	-0.707
BXD04	0.733	-1.171
BXD05	0.713	0.612
BXD06	0.766	-0.263
BXD07	0.284	0.014
BXD08	0.722	-0.367
BXD09	1.099	-0.207
CAST	0.741	0.254
CCcont	0.838	0.388
DS01	-0.051	0.024
DS02	-0.328	-0.693
DS04	-1.226	-0.333
DS0c	-0.3	-0.63
GP01	-0.84	0.328
GP02	-0.146	-0.879
GP0c	-0.297	-0.027
NOD	0.024	-0.047
NZO	-0.251	-0.909
PWK	0.35	-0.682
H37Rv_KO_CtpC	1.105	-0.32
H37Rv_KO_CtpD	-0.239	0.576
H37Rv_KO_Rv1272	-0.127	-0.092
H37Rv_KO_SugABC	-0.1	-1.345
H37Rv_KO_MbtN	-0.069	0.01
Trans05	-0.028	0.558
macrophage_unactivated	0.499	0.83
IL1	0.605	1.139
Rapamycin	0.187	0.997
Tcell	0.033	0.645
GMCSF	0.214	-0.206
IFNab	0.508	0.756
IFNg	0.216	0.198
IFNg_GMCSF1	0.698	0.707
Rv1432_day32	0.0	0.378
Rv1565c_day32	0.235	0.63
secA2_input	0.668	0.992
delta_Rv3594	0.583	-1.505
delta_Rv3717	0.424	0.472
delta_Rv3811	-0.271	-0.358
delta_Rv0954	-0.504	-0.194
PonA1	-0.479	-0.694
EccD1_KO	0.138	-0.25
EspI_KO	1.708	0.59
PE35_KO	0.522	0.169
PPE68_KO	0.806	0.0
glycerol2	0.705	-0.929
lignocerate	1.109	-0.302
oleate	-0.793	-1.67
phosphatidylcholine	0.392	-0.224
acetate	1.084	-0.352
glucAc	1.095	0.361
Rv0950ko	0.199	0.507
Rv1096ko	0.962	0.841
Rv3684ko	1.176	1.372
delta_otsA_trehalose	2.083	0.759