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 Rv3165c/-

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

	Rv0769/-	Rv3165c/-
Fe_supp_jason_reseq	0.612	1.427
low_pH_jason_reseq	-0.53	0.151
NO_jason_reseq	0.722	-1.394
B6_jason_reseq	0.533	0.333
MHCII_jason_reseq	0.951	0.308
Isoniazid02	-0.356	-0.295
Rifampicin4	-1.151	-0.309
Ethambutol3	0.131	-0.652
Meropenem3	0.47	0.024
Vancomycin16	-0.523	0.027
Rv2680_day32	0.816	2.941
H37Rv_KO_MarP	0.217	0.684
hypoxia_3wks	-0.439	-0.327
hypoxia_6wks	0.188	-0.503
glycerol	-0.461	0.718
cholesterol	0.061	-0.506
AJ	-0.264	0.128
Bibs02	-0.596	-0.603
Bibs02c	-1.449	-1.291
BL6	0.267	-0.342
BL6a	0.184	0.161
BXD01	0.027	0.173
BXD010	0.144	1.189
BXD011	0.191	0.478
BXD03	0.241	0.706
BXD04	0.733	0.913
BXD05	0.713	-0.249
BXD06	0.766	0.829
BXD07	0.284	0.687
BXD08	0.722	0.143
BXD09	1.099	0.486
CAST	0.741	0.305
CCcont	0.838	0.661
DS01	-0.051	-0.32
DS02	-0.328	-2.757
DS04	-1.226	-1.577
DS0c	-0.3	-0.715
GP01	-0.84	-0.715
GP02	-0.146	-1.448
GP0c	-0.297	-0.98
NOD	0.024	-0.199
NZO	-0.251	0.564
PWK	0.35	0.159
H37Rv_KO_CtpC	1.105	-0.567
H37Rv_KO_CtpD	-0.239	1.921
H37Rv_KO_Rv1272	-0.127	-0.082
H37Rv_KO_SugABC	-0.1	-0.562
H37Rv_KO_MbtN	-0.069	0.877
Trans05	-0.028	1.323
macrophage_unactivated	0.499	1.266
IL1	0.605	1.023
Rapamycin	0.187	0.657
Tcell	0.033	0.896
GMCSF	0.214	1.766
IFNab	0.508	0.686
IFNg	0.216	1.406
IFNg_GMCSF1	0.698	0.0
Rv1432_day32	0.0	-1.042
Rv1565c_day32	0.235	1.567
secA2_input	0.668	0.18
delta_Rv3594	0.583	-0.529
delta_Rv3717	0.424	-0.062
delta_Rv3811	-0.271	0.568
delta_Rv0954	-0.504	-1.112
PonA1	-0.479	-1.602
EccD1_KO	0.138	0.414
EspI_KO	1.708	1.198
PE35_KO	0.522	0.84
PPE68_KO	0.806	0.771
glycerol2	0.705	0.717
lignocerate	1.109	1.492
oleate	-0.793	-3.549
phosphatidylcholine	0.392	0.378
acetate	1.084	1.197
glucAc	1.095	1.646
Rv0950ko	0.199	0.265
Rv1096ko	0.962	0.09
Rv3684ko	1.176	-0.049
delta_otsA_trehalose	2.083	0.111