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 Rv3105c/prfB

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

	Rv0728c/serA2	Rv3105c/prfB
Fe_supp_jason_reseq	0.584	1.76
low_pH_jason_reseq	-0.744	-0.211
NO_jason_reseq	-0.494	0.583
B6_jason_reseq	-0.184	-0.292
MHCII_jason_reseq	-0.151	0.0
Isoniazid02	0.068	0.135
Rifampicin4	0.349	0.49
Ethambutol3	0.0	0.22
Meropenem3	1.656	2.735
Vancomycin16	0.822	0.48
Rv2680_day32	-0.252	-0.131
H37Rv_KO_MarP	0.246	0.226
hypoxia_3wks	0.387	1.252
hypoxia_6wks	0.679	0.0
glycerol	-0.471	-0.202
cholesterol	-0.371	0.0
AJ	0.282	2.086
Bibs02	-0.832	0.0
Bibs02c	0.42	-0.209
BL6	0.407	2.658
BL6a	0.336	1.131
BXD01	0.242	1.222
BXD010	0.989	1.387
BXD011	1.865	0.923
BXD03	0.127	1.893
BXD04	0.472	0.896
BXD05	0.818	0.0
BXD06	0.666	1.252
BXD07	0.462	0.712
BXD08	0.752	1.686
BXD09	0.624	1.018
CAST	0.342	0.746
CCcont	-0.076	0.852
DS01	-0.26	0.0
DS02	-0.969	-0.217
DS04	-0.707	0.0
DS0c	-0.625	0.379
GP01	-0.703	0.847
GP02	-1.195	0.0
GP0c	-0.776	-0.13
NOD	-0.456	0.0
NZO	0.538	2.021
PWK	-0.151	1.009
H37Rv_KO_CtpC	0.896	0.284
H37Rv_KO_CtpD	-1.949	0.0
H37Rv_KO_Rv1272	0.626	3.081
H37Rv_KO_SugABC	0.361	0.321
H37Rv_KO_MbtN	0.712	0.884
Trans05	0.327	0.119
macrophage_unactivated	0.0	0.947
IL1	0.056	-0.341
Rapamycin	0.678	0.328
Tcell	0.244	-0.186
GMCSF	0.116	-0.636
IFNab	0.0	0.163
IFNg	0.361	0.422
IFNg_GMCSF1	0.71	-0.556
Rv1432_day32	1.709	0.0
Rv1565c_day32	0.392	0.0
secA2_input	0.044	-0.412
delta_Rv3594	-1.418	-1.62
delta_Rv3717	-0.603	0.205
delta_Rv3811	-0.931	-1.761
delta_Rv0954	-0.848	0.0
PonA1	0.07	-0.743
EccD1_KO	0.026	0.793
EspI_KO	0.242	2.561
PE35_KO	-0.166	0.0
PPE68_KO	-0.624	0.0
glycerol2	0.242	0.332
lignocerate	0.407	-0.826
oleate	0.047	1.207
phosphatidylcholine	0.113	0.27
acetate	-0.113	0.321
glucAc	0.116	-1.868
Rv0950ko	0.078	-0.395
Rv1096ko	-0.133	-0.832
Rv3684ko	-0.413	-1.428
delta_otsA_trehalose	-0.68	-0.675