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 Rv0728c/serA2:

update plot	correlation	link to info on gene
Rv2330c/lppP	(cc=0.5127)	info on Rv2330c/lppP
Rv2451/-	(cc=0.4823)	info on Rv2451/-
Rv3584/lpqE	(cc=0.4608)	info on Rv3584/lpqE
Rv1482c/-	(cc=0.4543)	info on Rv1482c/-
Rv3105c/prfB	(cc=0.448)	info on Rv3105c/prfB
Rv3198A/-	(cc=0.4478)	info on Rv3198A/-
Rv2970A/-	(cc=0.4374)	info on Rv2970A/-
Rv2736c/recX	(cc=0.4351)	info on Rv2736c/recX
Rv0463/-	(cc=0.4207)	info on Rv0463/-
Rv1525/wbbL2	(cc=0.4139)	info on Rv1525/wbbL2

Correlation of Rv0728c/serA2 with Rv1482c/-

Normalized LFCs for Rv0728c/serA2:
(description and provenance of datasets)

	Rv0728c/serA2	Rv1482c/-
Fe_supp_jason_reseq	0.584	0.286
low_pH_jason_reseq	-0.744	-0.639
NO_jason_reseq	-0.494	0.417
B6_jason_reseq	-0.184	-0.856
MHCII_jason_reseq	-0.151	-1.002
Isoniazid02	0.068	-0.009
Rifampicin4	0.349	0.173
Ethambutol3	0.0	1.923
Meropenem3	1.656	1.896
Vancomycin16	0.822	0.305
Rv2680_day32	-0.252	0.067
H37Rv_KO_MarP	0.246	0.024
hypoxia_3wks	0.387	0.231
hypoxia_6wks	0.679	-0.013
glycerol	-0.471	-0.257
cholesterol	-0.371	-0.321
AJ	0.282	0.039
Bibs02	-0.832	-0.729
Bibs02c	0.42	-0.061
BL6	0.407	0.836
BL6a	0.336	0.509
BXD01	0.242	0.713
BXD010	0.989	0.887
BXD011	1.865	0.125
BXD03	0.127	0.825
BXD04	0.472	0.434
BXD05	0.818	0.979
BXD06	0.666	0.276
BXD07	0.462	0.398
BXD08	0.752	0.348
BXD09	0.624	0.482
CAST	0.342	-0.264
CCcont	-0.076	0.1
DS01	-0.26	-0.732
DS02	-0.969	-0.452
DS04	-0.707	0.427
DS0c	-0.625	-0.222
GP01	-0.703	-0.306
GP02	-1.195	0.225
GP0c	-0.776	0.286
NOD	-0.456	-0.187
NZO	0.538	0.477
PWK	-0.151	1.599
H37Rv_KO_CtpC	0.896	0.9
H37Rv_KO_CtpD	-1.949	0.273
H37Rv_KO_Rv1272	0.626	0.552
H37Rv_KO_SugABC	0.361	0.339
H37Rv_KO_MbtN	0.712	0.431
Trans05	0.327	1.091
macrophage_unactivated	0.0	-0.36
IL1	0.056	0.344
Rapamycin	0.678	-0.144
Tcell	0.244	0.551
GMCSF	0.116	0.605
IFNab	0.0	0.121
IFNg	0.361	0.224
IFNg_GMCSF1	0.71	0.842
Rv1432_day32	1.709	1.348
Rv1565c_day32	0.392	0.619
secA2_input	0.044	-0.791
delta_Rv3594	-1.418	-0.552
delta_Rv3717	-0.603	-0.644
delta_Rv3811	-0.931	-0.761
delta_Rv0954	-0.848	-0.652
PonA1	0.07	0.016
EccD1_KO	0.026	1.181
EspI_KO	0.242	0.65
PE35_KO	-0.166	0.875
PPE68_KO	-0.624	0.873
glycerol2	0.242	-0.328
lignocerate	0.407	-0.412
oleate	0.047	0.388
phosphatidylcholine	0.113	-0.146
acetate	-0.113	-0.818
glucAc	0.116	-0.968
Rv0950ko	0.078	0.323
Rv1096ko	-0.133	0.036
Rv3684ko	-0.413	0.35
delta_otsA_trehalose	-0.68	-1.002