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 Rv2851c/-:

update plot	correlation	link to info on gene
Rv2240c/-	(cc=0.5973)	info on Rv2240c/-
Rv3575c/-	(cc=0.5889)	info on Rv3575c/-
Rv0442c/PPE10	(cc=0.5562)	info on Rv0442c/PPE10
Rv2237/-	(cc=0.5264)	info on Rv2237/-
Rv3194c/-	(cc=0.5052)	info on Rv3194c/-
Rv1237/sugB	(cc=0.5007)	info on Rv1237/sugB
Rv3213c/-	(cc=0.4912)	info on Rv3213c/-
Rv0432/sodC	(cc=0.4862)	info on Rv0432/sodC
Rv1987/-	(cc=0.482)	info on Rv1987/-
Rv3534c/hsaF	(cc=0.4775)	info on Rv3534c/hsaF

Correlation of Rv2851c/- with Rv3575c/-

Normalized LFCs for Rv2851c/-:
(description and provenance of datasets)

	Rv2851c/-	Rv3575c/-
Fe_supp_jason_reseq	-0.021	0.079
low_pH_jason_reseq	-0.852	-1.128
NO_jason_reseq	2.539	0.331
B6_jason_reseq	0.843	0.737
MHCII_jason_reseq	1.51	-0.495
Isoniazid02	0.781	-0.256
Rifampicin4	-0.319	-1.053
Ethambutol3	0.14	0.223
Meropenem3	0.478	0.199
Vancomycin16	-0.653	-1.207
Rv2680_day32	1.779	1.286
H37Rv_KO_MarP	0.562	0.638
hypoxia_3wks	0.809	1.695
hypoxia_6wks	0.472	0.902
glycerol	0.884	-0.657
cholesterol	-1.323	-2.09
AJ	-0.484	-0.363
Bibs02	0.0	-0.554
Bibs02c	-0.217	-0.209
BL6	0.463	-0.204
BL6a	0.08	-1.155
BXD01	0.373	0.688
BXD010	0.052	-0.331
BXD011	0.149	0.305
BXD03	-0.99	-0.247
BXD04	0.744	0.806
BXD05	0.514	0.008
BXD06	-0.091	-0.326
BXD07	-0.131	0.068
BXD08	0.589	1.018
BXD09	1.403	0.484
CAST	-1.333	-2.167
CCcont	0.612	-1.041
DS01	-0.517	-0.447
DS02	1.549	1.345
DS04	-0.632	-0.278
DS0c	0.635	-0.5
GP01	2.288	-0.123
GP02	0.201	-0.227
GP0c	1.225	-0.059
NOD	-0.835	-1.516
NZO	0.533	1.706
PWK	-0.776	-1.388
H37Rv_KO_CtpC	0.248	-0.528
H37Rv_KO_CtpD	0.484	-0.679
H37Rv_KO_Rv1272	0.609	-0.406
H37Rv_KO_SugABC	2.202	0.1
H37Rv_KO_MbtN	1.314	-0.434
Trans05	1.236	0.979
macrophage_unactivated	0.956	-0.593
IL1	1.777	1.652
Rapamycin	2.55	0.758
Tcell	1.033	0.964
GMCSF	1.067	0.269
IFNab	0.051	-0.568
IFNg	3.814	3.017
IFNg_GMCSF1	4.286	2.533
Rv1432_day32	1.601	2.677
Rv1565c_day32	-0.31	-1.579
secA2_input	-0.56	0.171
delta_Rv3594	0.716	0.526
delta_Rv3717	0.405	1.122
delta_Rv3811	0.882	0.772
delta_Rv0954	0.031	0.328
PonA1	-1.27	-1.287
EccD1_KO	0.789	-0.036
EspI_KO	0.819	0.063
PE35_KO	0.289	0.064
PPE68_KO	0.451	0.07
glycerol2	3.544	1.152
lignocerate	3.187	0.04
oleate	-1.418	0.047
phosphatidylcholine	3.27	0.657
acetate	2.809	-0.672
glucAc	2.649	-0.536
Rv0950ko	0.585	0.691
Rv1096ko	0.558	1.445
Rv3684ko	1.041	1.67
delta_otsA_trehalose	2.311	1.192