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 Rv3600c/-:

update plot	correlation	link to info on gene
Rv3045/adhC	(cc=0.5849)	info on Rv3045/adhC
Rv3891c/esxD	(cc=0.511)	info on Rv3891c/esxD
Rv2299c/htpG	(cc=0.4844)	info on Rv2299c/htpG
Rv0407/fgd1	(cc=0.4809)	info on Rv0407/fgd1
Rv3133c/devR	(cc=0.4536)	info on Rv3133c/devR
Rv0009/ppiA	(cc=0.4502)	info on Rv0009/ppiA
Rv2031c/hspX	(cc=0.4362)	info on Rv2031c/hspX
Rv3293/pcd	(cc=0.4256)	info on Rv3293/pcd
Rv1691/-	(cc=0.4211)	info on Rv1691/-
Rv1069c/-	(cc=0.4152)	info on Rv1069c/-

Correlation of Rv3600c/- with Rv2299c/htpG

Normalized LFCs for Rv3600c/-:
(description and provenance of datasets)

	Rv3600c/-	Rv2299c/htpG
Fe_supp_jason_reseq	1.077	0.15
low_pH_jason_reseq	1.623	0.018
NO_jason_reseq	0.782	0.058
B6_jason_reseq	1.175	1.016
MHCII_jason_reseq	1.194	0.674
Isoniazid02	-2.734	-1.387
Rifampicin4	-1.189	-0.688
Ethambutol3	0.083	-0.711
Meropenem3	-1.592	-1.282
Vancomycin16	0.52	-0.608
Rv2680_day32	1.45	0.322
H37Rv_KO_MarP	0.794	0.285
hypoxia_3wks	-4.135	-1.113
hypoxia_6wks	-3.773	-1.274
glycerol	1.198	-0.079
cholesterol	0.85	0.302
AJ	0.165	0.035
Bibs02	0.595	-0.24
Bibs02c	0.503	0.409
BL6	0.361	0.01
BL6a	0.661	0.449
BXD01	0.48	0.238
BXD010	0.046	0.489
BXD011	0.256	0.971
BXD03	-0.423	0.1
BXD04	0.158	0.418
BXD05	0.672	1.074
BXD06	0.281	0.422
BXD07	0.13	0.551
BXD08	0.433	0.472
BXD09	0.543	0.559
CAST	-0.609	0.494
CCcont	1.026	0.521
DS01	1.215	0.072
DS02	0.876	0.44
DS04	0.732	-0.155
DS0c	1.163	0.585
GP01	0.572	-0.062
GP02	0.059	-0.669
GP0c	-0.1	-0.288
NOD	-0.142	1.118
NZO	-0.318	0.09
PWK	0.0	0.131
H37Rv_KO_CtpC	-1.412	-0.227
H37Rv_KO_CtpD	1.936	-0.122
H37Rv_KO_Rv1272	0.225	1.463
H37Rv_KO_SugABC	-1.267	0.976
H37Rv_KO_MbtN	-0.194	1.006
Trans05	-0.476	0.526
macrophage_unactivated	1.054	-0.221
IL1	-0.819	0.389
Rapamycin	0.0	-0.301
Tcell	-0.658	0.479
GMCSF	-0.533	-0.045
IFNab	-0.193	-0.611
IFNg	-1.165	-0.262
IFNg_GMCSF1	-0.635	-0.512
Rv1432_day32	1.008	0.52
Rv1565c_day32	1.399	0.73
secA2_input	-0.064	-0.274
delta_Rv3594	-0.101	0.415
delta_Rv3717	-0.055	0.262
delta_Rv3811	-0.628	0.341
delta_Rv0954	-1.765	0.11
PonA1	1.348	0.313
EccD1_KO	0.171	-0.48
EspI_KO	0.59	-0.086
PE35_KO	0.735	0.718
PPE68_KO	0.627	0.397
glycerol2	-0.385	-0.462
lignocerate	0.178	-0.179
oleate	-1.0	-0.295
phosphatidylcholine	0.08	-0.422
acetate	0.617	0.279
glucAc	0.598	0.0
Rv0950ko	1.034	0.118
Rv1096ko	0.546	-0.606
Rv3684ko	0.927	0.282
delta_otsA_trehalose	-0.459	-0.898