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 Rv0770/-:

update plot	correlation	link to info on gene
Rv0973c/accA2	(cc=0.464)	info on Rv0973c/accA2
Rv0863/-	(cc=0.4065)	info on Rv0863/-
Rv1076/lipU	(cc=0.4025)	info on Rv1076/lipU
Rv3713/cobQ2	(cc=0.3989)	info on Rv3713/cobQ2
Rv3016/lpqA	(cc=0.3952)	info on Rv3016/lpqA
Rv3692/moxR2	(cc=0.3938)	info on Rv3692/moxR2
Rv1216c/-	(cc=0.3937)	info on Rv1216c/-
Rv3314c/deoA	(cc=0.3883)	info on Rv3314c/deoA
Rv0188/-	(cc=0.3728)	info on Rv0188/-
Rv3796/-	(cc=0.3704)	info on Rv3796/-

Correlation of Rv0770/- with Rv3314c/deoA

Normalized LFCs for Rv0770/-:
(description and provenance of datasets)

	Rv0770/-	Rv3314c/deoA
Fe_supp_jason_reseq	-1.174	-0.672
low_pH_jason_reseq	0.214	0.291
NO_jason_reseq	0.646	-0.753
B6_jason_reseq	-0.255	-1.302
MHCII_jason_reseq	0.065	-1.01
Isoniazid02	0.191	-0.217
Rifampicin4	0.785	0.203
Ethambutol3	0.081	-0.198
Meropenem3	2.949	1.96
Vancomycin16	0.719	0.326
Rv2680_day32	-1.435	-0.435
H37Rv_KO_MarP	1.058	-0.562
hypoxia_3wks	-0.478	-0.542
hypoxia_6wks	0.038	0.061
glycerol	-1.11	-0.519
cholesterol	0.324	-0.398
AJ	0.832	-0.479
Bibs02	-0.044	-1.229
Bibs02c	0.565	-1.155
BL6	1.421	0.574
BL6a	0.115	-0.254
BXD01	1.033	0.405
BXD010	1.251	-0.224
BXD011	0.762	-0.284
BXD03	1.775	0.053
BXD04	1.598	0.308
BXD05	0.56	0.018
BXD06	1.159	0.529
BXD07	1.339	0.018
BXD08	1.728	0.783
BXD09	0.65	-0.038
CAST	0.447	-0.26
CCcont	0.768	1.179
DS01	0.055	-0.775
DS02	1.134	-0.214
DS04	-0.614	-0.249
DS0c	1.584	-0.245
GP01	0.577	0.453
GP02	-0.664	-0.387
GP0c	0.949	0.179
NOD	0.545	-0.778
NZO	-0.538	-0.478
PWK	1.385	0.026
H37Rv_KO_CtpC	1.107	1.041
H37Rv_KO_CtpD	0.496	-0.088
H37Rv_KO_Rv1272	0.444	0.841
H37Rv_KO_SugABC	0.111	-0.99
H37Rv_KO_MbtN	0.722	1.025
Trans05	-0.015	1.346
macrophage_unactivated	0.117	0.644
IL1	0.32	0.789
Rapamycin	0.712	1.961
Tcell	1.03	0.231
GMCSF	1.027	0.187
IFNab	1.046	0.759
IFNg	1.438	0.831
IFNg_GMCSF1	0.339	-0.484
Rv1432_day32	0.372	1.103
Rv1565c_day32	0.46	0.859
secA2_input	1.032	-0.866
delta_Rv3594	0.951	0.0
delta_Rv3717	0.287	0.191
delta_Rv3811	0.907	-0.378
delta_Rv0954	-0.603	-0.262
PonA1	-0.044	-0.122
EccD1_KO	0.493	0.086
EspI_KO	-0.205	-0.819
PE35_KO	0.834	-0.656
PPE68_KO	0.429	-0.72
glycerol2	0.757	0.038
lignocerate	0.533	0.558
oleate	1.252	-1.289
phosphatidylcholine	0.989	0.181
acetate	0.598	0.0
glucAc	0.01	0.302
Rv0950ko	0.103	-0.95
Rv1096ko	0.543	-0.087
Rv3684ko	0.275	-0.386
delta_otsA_trehalose	-0.485	0.168