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 Rv2685/arsB1:

update plot	correlation	link to info on gene
Rv1785c/cyp143	(cc=0.5095)	info on Rv1785c/cyp143
Rv2605c/tesB2	(cc=0.4683)	info on Rv2605c/tesB2
Rv0216/-	(cc=0.4667)	info on Rv0216/-
Rv3016/lpqA	(cc=0.4651)	info on Rv3016/lpqA
Rv3541c/-	(cc=0.4625)	info on Rv3541c/-
Rv1493/mutB	(cc=0.4618)	info on Rv1493/mutB
Rv1561/vapC11	(cc=0.4596)	info on Rv1561/vapC11
Rv1234/-	(cc=0.4594)	info on Rv1234/-
Rv3614c/espD	(cc=0.4573)	info on Rv3614c/espD
Rv1819c/bacA	(cc=0.4558)	info on Rv1819c/bacA

Correlation of Rv2685/arsB1 with Rv1785c/cyp143

Normalized LFCs for Rv2685/arsB1:
(description and provenance of datasets)

	Rv2685/arsB1	Rv1785c/cyp143
Fe_supp_jason_reseq	-0.908	-1.061
low_pH_jason_reseq	-0.405	0.375
NO_jason_reseq	0.27	-0.47
B6_jason_reseq	-1.456	-1.819
MHCII_jason_reseq	-1.512	-1.7
Isoniazid02	1.106	2.343
Rifampicin4	-1.083	0.276
Ethambutol3	2.852	3.134
Meropenem3	-0.389	0.55
Vancomycin16	-0.061	0.854
Rv2680_day32	0.863	1.493
H37Rv_KO_MarP	0.662	-0.233
hypoxia_3wks	-0.55	0.148
hypoxia_6wks	0.0	0.332
glycerol	-0.777	-0.32
cholesterol	-0.253	-1.07
AJ	-0.97	-0.664
Bibs02	-1.144	-0.67
Bibs02c	-0.024	0.368
BL6	-0.074	0.31
BL6a	0.154	-0.491
BXD01	-0.358	0.038
BXD010	0.241	0.485
BXD011	0.277	0.753
BXD03	0.147	0.706
BXD04	0.303	-0.196
BXD05	0.837	0.59
BXD06	0.351	-0.282
BXD07	-0.048	0.226
BXD08	0.638	0.094
BXD09	-0.066	-0.153
CAST	-0.28	-0.704
CCcont	-0.344	0.753
DS01	-1.112	-0.034
DS02	-2.045	0.354
DS04	0.902	0.292
DS0c	-1.268	-0.663
GP01	1.047	0.701
GP02	0.074	0.979
GP0c	0.624	0.853
NOD	-0.159	-1.66
NZO	-1.377	-0.494
PWK	-0.755	-0.719
H37Rv_KO_CtpC	0.731	1.472
H37Rv_KO_CtpD	0.42	-0.038
H37Rv_KO_Rv1272	0.656	1.278
H37Rv_KO_SugABC	-0.365	0.453
H37Rv_KO_MbtN	-0.759	0.461
Trans05	1.307	1.2
macrophage_unactivated	-0.051	0.369
IL1	0.54	0.178
Rapamycin	1.504	0.184
Tcell	0.688	0.049
GMCSF	1.413	0.454
IFNab	0.55	0.091
IFNg	1.43	0.385
IFNg_GMCSF1	0.918	0.946
Rv1432_day32	0.031	-0.37
Rv1565c_day32	-0.281	-1.101
secA2_input	-0.441	-0.022
delta_Rv3594	0.219	-0.3
delta_Rv3717	0.106	-1.0
delta_Rv3811	0.584	0.32
delta_Rv0954	1.039	-1.23
PonA1	1.065	-0.309
EccD1_KO	0.572	0.615
EspI_KO	0.781	0.533
PE35_KO	0.592	0.776
PPE68_KO	1.577	0.768
glycerol2	-0.071	-0.104
lignocerate	0.015	0.198
oleate	0.474	-0.561
phosphatidylcholine	0.153	0.06
acetate	-0.963	0.973
glucAc	-0.618	0.284
Rv0950ko	-0.543	-0.1
Rv1096ko	-0.338	-1.062
Rv3684ko	0.196	-1.064
delta_otsA_trehalose	3.447	0.701