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 Rv2038c/-:

update plot	correlation	link to info on gene
Rv2147c/-	(cc=0.6834)	info on Rv2147c/-
Rv1583c/-	(cc=0.6311)	info on Rv1583c/-
Rv1548c/PPE21	(cc=0.6053)	info on Rv1548c/PPE21
Rv1526c/-	(cc=0.5712)	info on Rv1526c/-
Rv3036c/TB22.2	(cc=0.5468)	info on Rv3036c/TB22.2
Rv1076/lipU	(cc=0.5395)	info on Rv1076/lipU
Rv2575/-	(cc=0.5238)	info on Rv2575/-
Rv2480c/-	(cc=0.5213)	info on Rv2480c/-
Rv0188/-	(cc=0.5166)	info on Rv0188/-
Rv2929/-	(cc=0.5144)	info on Rv2929/-

Correlation of Rv2038c/- with Rv2147c/-

Normalized LFCs for Rv2038c/-:
(description and provenance of datasets)

	Rv2038c/-	Rv2147c/-
Fe_supp_jason_reseq	-1.699	-1.733
low_pH_jason_reseq	-0.127	0.345
NO_jason_reseq	-0.465	-0.438
B6_jason_reseq	-2.64	-1.49
MHCII_jason_reseq	-0.977	-0.968
Isoniazid02	0.115	0.284
Rifampicin4	-0.149	0.731
Ethambutol3	-0.067	0.0
Meropenem3	-0.321	0.353
Vancomycin16	0.21	-0.785
Rv2680_day32	-1.358	-1.559
H37Rv_KO_MarP	0.207	-2.052
hypoxia_3wks	-0.183	0.12
hypoxia_6wks	1.462	0.77
glycerol	-1.252	-0.287
cholesterol	-1.217	-0.917
AJ	-0.494	-0.713
Bibs02	-1.537	0.229
Bibs02c	-0.591	-0.867
BL6	1.212	2.015
BL6a	0.106	0.346
BXD01	-0.074	0.441
BXD010	0.34	0.703
BXD011	0.888	1.578
BXD03	0.622	-0.45
BXD04	0.612	0.848
BXD05	1.52	0.855
BXD06	0.438	0.916
BXD07	0.731	0.22
BXD08	0.849	0.605
BXD09	0.979	0.907
CAST	0.184	-1.625
CCcont	0.764	0.917
DS01	-0.936	-1.495
DS02	-1.575	-1.303
DS04	-0.225	-0.499
DS0c	-0.251	-1.09
GP01	1.204	1.579
GP02	0.544	0.281
GP0c	0.598	1.526
NOD	-0.404	-1.129
NZO	0.306	-1.195
PWK	-0.627	-0.504
H37Rv_KO_CtpC	0.087	0.892
H37Rv_KO_CtpD	1.034	1.682
H37Rv_KO_Rv1272	1.002	1.279
H37Rv_KO_SugABC	0.784	1.939
H37Rv_KO_MbtN	1.145	0.794
Trans05	2.398	1.45
macrophage_unactivated	-0.246	0.167
IL1	1.397	1.059
Rapamycin	-0.239	0.687
Tcell	0.544	0.42
GMCSF	0.38	0.591
IFNab	0.834	0.275
IFNg	0.738	-0.072
IFNg_GMCSF1	0.93	0.405
Rv1432_day32	-0.614	0.933
Rv1565c_day32	0.096	0.818
secA2_input	-0.504	0.255
delta_Rv3594	0.035	1.767
delta_Rv3717	-0.218	1.939
delta_Rv3811	0.034	0.996
delta_Rv0954	-0.864	-0.021
PonA1	-2.363	-1.117
EccD1_KO	0.914	0.71
EspI_KO	-0.257	-0.588
PE35_KO	0.187	-0.42
PPE68_KO	-0.678	0.298
glycerol2	0.607	2.091
lignocerate	1.538	2.954
oleate	-1.418	0.123
phosphatidylcholine	0.531	2.342
acetate	1.998	2.733
glucAc	1.735	2.576
Rv0950ko	-1.049	-1.646
Rv1096ko	0.0	-0.241
Rv3684ko	-0.727	-0.174
delta_otsA_trehalose	0.087	0.079