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 Rv3016/lpqA

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

	Rv2685/arsB1	Rv3016/lpqA
Fe_supp_jason_reseq	-0.908	-1.077
low_pH_jason_reseq	-0.405	-0.43
NO_jason_reseq	0.27	-0.068
B6_jason_reseq	-1.456	-1.444
MHCII_jason_reseq	-1.512	-1.914
Isoniazid02	1.106	0.087
Rifampicin4	-1.083	-0.198
Ethambutol3	2.852	0.277
Meropenem3	-0.389	2.468
Vancomycin16	-0.061	-0.287
Rv2680_day32	0.863	-0.452
H37Rv_KO_MarP	0.662	-0.078
hypoxia_3wks	-0.55	0.128
hypoxia_6wks	0.0	-0.069
glycerol	-0.777	-0.895
cholesterol	-0.253	-1.184
AJ	-0.97	-0.361
Bibs02	-1.144	-1.131
Bibs02c	-0.024	0.614
BL6	-0.074	1.181
BL6a	0.154	0.974
BXD01	-0.358	0.239
BXD010	0.241	0.142
BXD011	0.277	0.567
BXD03	0.147	1.236
BXD04	0.303	0.65
BXD05	0.837	0.302
BXD06	0.351	0.463
BXD07	-0.048	0.681
BXD08	0.638	0.154
BXD09	-0.066	0.076
CAST	-0.28	0.025
CCcont	-0.344	0.547
DS01	-1.112	-0.642
DS02	-2.045	-0.243
DS04	0.902	-0.157
DS0c	-1.268	-0.872
GP01	1.047	0.932
GP02	0.074	0.241
GP0c	0.624	-0.372
NOD	-0.159	-1.113
NZO	-1.377	-0.644
PWK	-0.755	-0.59
H37Rv_KO_CtpC	0.731	0.393
H37Rv_KO_CtpD	0.42	0.523
H37Rv_KO_Rv1272	0.656	1.561
H37Rv_KO_SugABC	-0.365	0.987
H37Rv_KO_MbtN	-0.759	-0.222
Trans05	1.307	0.879
macrophage_unactivated	-0.051	0.647
IL1	0.54	0.314
Rapamycin	1.504	0.779
Tcell	0.688	0.02
GMCSF	1.413	0.475
IFNab	0.55	0.481
IFNg	1.43	0.297
IFNg_GMCSF1	0.918	0.798
Rv1432_day32	0.031	-0.433
Rv1565c_day32	-0.281	0.208
secA2_input	-0.441	0.38
delta_Rv3594	0.219	1.017
delta_Rv3717	0.106	0.254
delta_Rv3811	0.584	0.787
delta_Rv0954	1.039	0.373
PonA1	1.065	-0.577
EccD1_KO	0.572	0.714
EspI_KO	0.781	0.311
PE35_KO	0.592	0.907
PPE68_KO	1.577	1.193
glycerol2	-0.071	-0.172
lignocerate	0.015	0.045
oleate	0.474	-0.125
phosphatidylcholine	0.153	0.095
acetate	-0.963	-0.386
glucAc	-0.618	0.091
Rv0950ko	-0.543	0.44
Rv1096ko	-0.338	0.042
Rv3684ko	0.196	0.023
delta_otsA_trehalose	3.447	0.615