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 Rv0303/-:

update plot	correlation	link to info on gene
Rv0276/-	(cc=0.5835)	info on Rv0276/-
Rv0592/mce2D	(cc=0.5553)	info on Rv0592/mce2D
Rv3839/-	(cc=0.5345)	info on Rv3839/-
Rv0918/-	(cc=0.5206)	info on Rv0918/-
Rv2771c/-	(cc=0.5135)	info on Rv2771c/-
Rv0071/-	(cc=0.4974)	info on Rv0071/-
Rv3788/-	(cc=0.4881)	info on Rv3788/-
Rv3103c/-	(cc=0.4749)	info on Rv3103c/-
Rv1453/-	(cc=0.461)	info on Rv1453/-
Rv0233/nrdB	(cc=0.4576)	info on Rv0233/nrdB

Correlation of Rv0303/- with Rv0918/-

Normalized LFCs for Rv0303/-:
(description and provenance of datasets)

	Rv0303/-	Rv0918/-
Fe_supp_jason_reseq	0.071	-0.019
low_pH_jason_reseq	-0.577	-1.362
NO_jason_reseq	-0.494	0.459
B6_jason_reseq	0.857	0.781
MHCII_jason_reseq	-0.077	1.154
Isoniazid02	-0.162	0.112
Rifampicin4	-0.13	-0.187
Ethambutol3	-0.206	1.223
Meropenem3	-0.156	0.839
Vancomycin16	-0.127	0.424
Rv2680_day32	0.829	2.915
H37Rv_KO_MarP	0.241	1.067
hypoxia_3wks	0.136	-0.797
hypoxia_6wks	0.66	-0.042
glycerol	-0.13	-0.554
cholesterol	-0.764	0.024
AJ	-0.343	1.316
Bibs02	-0.65	0.02
Bibs02c	0.853	0.706
BL6	0.246	-0.325
BL6a	0.098	0.376
BXD01	-0.735	-0.509
BXD010	-0.357	-0.297
BXD011	-0.805	-1.106
BXD03	-0.487	-0.644
BXD04	-0.092	-1.75
BXD05	-0.316	-1.395
BXD06	-0.356	-0.671
BXD07	-0.369	-1.133
BXD08	-1.018	-0.183
BXD09	-0.325	-0.608
CAST	0.317	-0.133
CCcont	-0.969	-0.571
DS01	-0.075	0.065
DS02	0.325	0.512
DS04	0.24	0.607
DS0c	0.239	1.031
GP01	-0.658	-2.828
GP02	-1.356	-1.939
GP0c	-0.727	-0.857
NOD	0.436	0.285
NZO	-0.376	0.283
PWK	0.159	-0.033
H37Rv_KO_CtpC	-0.116	0.238
H37Rv_KO_CtpD	0.669	-0.796
H37Rv_KO_Rv1272	0.418	-0.397
H37Rv_KO_SugABC	-1.585	-1.469
H37Rv_KO_MbtN	-1.073	-0.42
Trans05	-0.511	-0.428
macrophage_unactivated	-0.177	-1.341
IL1	-0.092	-0.151
Rapamycin	-0.733	-1.065
Tcell	-0.287	-1.342
GMCSF	-0.301	0.605
IFNab	-0.856	-0.898
IFNg	-0.083	-1.355
IFNg_GMCSF1	-0.984	-0.531
Rv1432_day32	0.31	0.692
Rv1565c_day32	0.028	-1.136
secA2_input	0.554	-0.955
delta_Rv3594	-0.58	-0.561
delta_Rv3717	-0.312	0.466
delta_Rv3811	-0.739	0.474
delta_Rv0954	-0.868	-0.557
PonA1	-0.119	1.163
EccD1_KO	-0.197	-1.187
EspI_KO	-0.836	-2.028
PE35_KO	-0.744	-1.762
PPE68_KO	-0.733	-2.176
glycerol2	-0.067	-0.39
lignocerate	-0.311	0.0
oleate	0.024	-0.109
phosphatidylcholine	-0.126	-0.297
acetate	-0.603	-0.52
glucAc	-0.315	0.224
Rv0950ko	0.651	0.169
Rv1096ko	1.095	1.098
Rv3684ko	0.956	0.734
delta_otsA_trehalose	1.464	0.66