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 Rv0261c/narK3:

update plot	correlation	link to info on gene
Rv2756c/hsdM	(cc=0.5257)	info on Rv2756c/hsdM
Rv1425/-	(cc=0.5177)	info on Rv1425/-
Rv0789c/-	(cc=0.4985)	info on Rv0789c/-
Rv1927/-	(cc=0.4645)	info on Rv1927/-
Rv0858c/dapC	(cc=0.448)	info on Rv0858c/dapC
Rv2078/-	(cc=0.4423)	info on Rv2078/-
Rv3522/ltp4	(cc=0.4398)	info on Rv3522/ltp4
Rv3234c/tgs3	(cc=0.4387)	info on Rv3234c/tgs3
Rv1249c/-	(cc=0.434)	info on Rv1249c/-
Rv0773c/ggtA	(cc=0.4335)	info on Rv0773c/ggtA

Correlation of Rv0261c/narK3 with Rv2756c/hsdM

Normalized LFCs for Rv0261c/narK3:
(description and provenance of datasets)

	Rv0261c/narK3	Rv2756c/hsdM
Fe_supp_jason_reseq	-1.435	-0.178
low_pH_jason_reseq	0.273	0.671
NO_jason_reseq	-0.213	0.772
B6_jason_reseq	-0.184	0.83
MHCII_jason_reseq	0.374	-0.169
Isoniazid02	0.406	0.211
Rifampicin4	-0.623	-0.119
Ethambutol3	-0.058	-0.081
Meropenem3	0.0	-0.412
Vancomycin16	0.358	0.279
Rv2680_day32	-0.267	0.104
H37Rv_KO_MarP	0.0	-0.229
hypoxia_3wks	-0.574	-0.152
hypoxia_6wks	-0.186	0.155
glycerol	-0.551	0.0
cholesterol	-0.246	-0.107
AJ	-0.899	0.0
Bibs02	0.736	1.491
Bibs02c	-0.781	0.92
BL6	0.039	0.643
BL6a	-0.957	0.222
BXD01	-0.159	0.0
BXD010	-0.458	0.088
BXD011	-0.233	0.71
BXD03	-0.722	0.209
BXD04	0.225	-0.19
BXD05	-0.65	0.261
BXD06	-0.147	0.667
BXD07	-0.219	0.752
BXD08	0.526	0.759
BXD09	-0.205	0.723
CAST	0.072	0.402
CCcont	-0.147	0.768
DS01	0.098	0.551
DS02	-0.14	0.742
DS04	0.06	0.791
DS0c	-0.214	0.586
GP01	0.0	1.237
GP02	0.567	0.416
GP0c	-0.409	1.002
NOD	-0.553	0.952
NZO	-0.6	0.224
PWK	0.215	0.135
H37Rv_KO_CtpC	0.131	1.252
H37Rv_KO_CtpD	-1.086	1.176
H37Rv_KO_Rv1272	0.398	0.642
H37Rv_KO_SugABC	0.041	0.958
H37Rv_KO_MbtN	-0.836	-0.85
Trans05	0.359	0.061
macrophage_unactivated	0.129	0.843
IL1	-0.19	0.792
Rapamycin	-0.62	0.54
Tcell	0.199	0.723
GMCSF	-0.795	0.401
IFNab	-0.611	0.532
IFNg	0.714	1.318
IFNg_GMCSF1	0.255	0.977
Rv1432_day32	0.441	-0.139
Rv1565c_day32	1.188	0.163
secA2_input	-0.116	-0.185
delta_Rv3594	-0.373	0.04
delta_Rv3717	-0.892	-0.5
delta_Rv3811	-0.596	-0.253
delta_Rv0954	-1.424	-0.035
PonA1	-0.873	-0.77
EccD1_KO	-1.105	0.26
EspI_KO	-0.759	0.225
PE35_KO	-0.438	0.592
PPE68_KO	-0.234	0.416
glycerol2	1.006	1.499
lignocerate	1.456	2.015
oleate	0.496	0.537
phosphatidylcholine	1.248	1.683
acetate	0.582	2.292
glucAc	0.637	2.744
Rv0950ko	-0.163	0.217
Rv1096ko	0.863	1.324
Rv3684ko	0.596	1.195
delta_otsA_trehalose	-0.247	-0.103