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 Rv3528c/-:

update plot	correlation	link to info on gene
Rv3210c/-	(cc=0.7172)	info on Rv3210c/-
Rv0642c/mmaA4	(cc=0.6187)	info on Rv0642c/mmaA4
Rv1500/-	(cc=0.618)	info on Rv1500/-
Rv1925/fadD31	(cc=0.6117)	info on Rv1925/fadD31
Rv0055/rpsR1	(cc=0.6065)	info on Rv0055/rpsR1
Rv2544/lppB	(cc=0.6054)	info on Rv2544/lppB
Rv3524/-	(cc=0.6051)	info on Rv3524/-
Rv3152/nuoH	(cc=0.604)	info on Rv3152/nuoH
Rv2548/vapC19	(cc=0.599)	info on Rv2548/vapC19
Rv1724c/-	(cc=0.5811)	info on Rv1724c/-

Correlation of Rv3528c/- with Rv2544/lppB

Normalized LFCs for Rv3528c/-:
(description and provenance of datasets)

	Rv3528c/-	Rv2544/lppB
Fe_supp_jason_reseq	0.838	1.127
low_pH_jason_reseq	-0.607	-1.017
NO_jason_reseq	0.137	0.173
B6_jason_reseq	0.547	0.024
MHCII_jason_reseq	0.445	-1.788
Isoniazid02	-0.068	0.0
Rifampicin4	0.0	-0.883
Ethambutol3	-0.449	-0.353
Meropenem3	-0.442	-0.391
Vancomycin16	0.353	0.799
Rv2680_day32	-0.186	0.305
H37Rv_KO_MarP	-0.054	-0.246
hypoxia_3wks	-0.833	-0.813
hypoxia_6wks	0.967	-0.115
glycerol	0.102	0.06
cholesterol	-0.652	-0.184
AJ	1.356	-0.071
Bibs02	0.956	0.437
Bibs02c	0.812	1.105
BL6	0.97	1.373
BL6a	2.408	1.738
BXD01	1.562	1.583
BXD010	1.676	1.615
BXD011	1.705	1.618
BXD03	2.078	1.844
BXD04	1.619	1.957
BXD05	2.306	1.846
BXD06	1.881	1.135
BXD07	2.076	1.284
BXD08	1.617	1.041
BXD09	1.922	1.435
CAST	0.117	-0.908
CCcont	1.492	1.744
DS01	0.551	0.137
DS02	1.459	-0.276
DS04	1.248	0.554
DS0c	-0.809	-0.275
GP01	1.216	-0.745
GP02	-0.141	-0.444
GP0c	0.0	-0.83
NOD	-0.12	-0.361
NZO	-0.465	-0.253
PWK	0.615	1.172
H37Rv_KO_CtpC	2.026	2.292
H37Rv_KO_CtpD	0.662	1.467
H37Rv_KO_Rv1272	2.217	1.852
H37Rv_KO_SugABC	1.188	1.493
H37Rv_KO_MbtN	1.632	2.949
Trans05	0.725	1.969
macrophage_unactivated	0.89	0.249
IL1	0.243	0.178
Rapamycin	0.0	0.061
Tcell	0.762	0.56
GMCSF	0.145	0.309
IFNab	-0.088	0.296
IFNg	0.754	0.828
IFNg_GMCSF1	-0.273	1.901
Rv1432_day32	-0.168	0.035
Rv1565c_day32	-0.357	1.311
secA2_input	0.377	-0.606
delta_Rv3594	0.731	1.201
delta_Rv3717	-0.135	0.055
delta_Rv3811	0.219	0.86
delta_Rv0954	-0.211	0.727
PonA1	-0.645	0.075
EccD1_KO	-1.085	0.059
EspI_KO	-0.713	0.485
PE35_KO	-0.403	0.855
PPE68_KO	-0.326	0.841
glycerol2	0.598	2.159
lignocerate	1.391	2.678
oleate	0.136	-1.239
phosphatidylcholine	0.933	2.189
acetate	0.999	2.909
glucAc	1.377	2.554
Rv0950ko	0.742	0.121
Rv1096ko	0.48	-0.712
Rv3684ko	0.318	-0.517
delta_otsA_trehalose	-1.179	-0.318