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 Rv1996/-:

update plot	correlation	link to info on gene
Rv2865/relF	(cc=0.5506)	info on Rv2865/relF
Rv1753c/PPE24	(cc=0.5334)	info on Rv1753c/PPE24
Rv2806/-	(cc=0.5175)	info on Rv2806/-
Rv2246/kasB	(cc=0.496)	info on Rv2246/kasB
Rv2231c/cobC	(cc=0.4869)	info on Rv2231c/cobC
Rv0862c/-	(cc=0.4855)	info on Rv0862c/-
Rv0049/-	(cc=0.4731)	info on Rv0049/-
Rv2299c/htpG	(cc=0.4712)	info on Rv2299c/htpG
Rv0866/moaE2	(cc=0.4631)	info on Rv0866/moaE2
Rv2724c/fadE20	(cc=0.4598)	info on Rv2724c/fadE20

Correlation of Rv1996/- with Rv0862c/-

Normalized LFCs for Rv1996/-:
(description and provenance of datasets)

	Rv1996/-	Rv0862c/-
Fe_supp_jason_reseq	-0.134	1.179
low_pH_jason_reseq	-0.254	-0.273
NO_jason_reseq	0.176	0.845
B6_jason_reseq	0.208	0.795
MHCII_jason_reseq	0.085	0.73
Isoniazid02	-1.052	-0.54
Rifampicin4	-0.42	-1.164
Ethambutol3	-1.014	-0.573
Meropenem3	-0.618	1.375
Vancomycin16	-0.812	-0.785
Rv2680_day32	-0.73	0.423
H37Rv_KO_MarP	-0.073	-0.155
hypoxia_3wks	-0.056	-0.179
hypoxia_6wks	0.34	-0.731
glycerol	-0.097	0.769
cholesterol	-0.393	0.594
AJ	0.208	0.85
Bibs02	0.174	-0.474
Bibs02c	-0.05	0.505
BL6	0.383	0.26
BL6a	0.482	0.783
BXD01	-0.178	0.0
BXD010	0.37	0.309
BXD011	1.465	0.127
BXD03	1.255	1.202
BXD04	0.601	-0.08
BXD05	0.664	0.842
BXD06	0.343	0.158
BXD07	0.124	0.402
BXD08	0.235	0.407
BXD09	0.62	0.339
CAST	0.105	0.272
CCcont	-0.08	0.733
DS01	0.286	0.648
DS02	0.638	0.597
DS04	0.62	1.003
DS0c	0.297	0.174
GP01	-0.632	0.652
GP02	-1.583	-0.675
GP0c	-0.949	-0.205
NOD	-0.308	0.789
NZO	0.629	0.199
PWK	0.165	-0.216
H37Rv_KO_CtpC	-0.358	0.419
H37Rv_KO_CtpD	-1.134	0.387
H37Rv_KO_Rv1272	0.527	0.167
H37Rv_KO_SugABC	0.403	0.889
H37Rv_KO_MbtN	0.364	-0.137
Trans05	0.117	-0.144
macrophage_unactivated	0.382	0.42
IL1	-0.323	-0.068
Rapamycin	0.236	0.141
Tcell	-0.283	0.222
GMCSF	0.507	0.061
IFNab	-0.263	-0.07
IFNg	0.083	-0.061
IFNg_GMCSF1	-0.676	0.214
Rv1432_day32	-0.089	-0.046
Rv1565c_day32	0.734	0.741
secA2_input	0.238	1.67
delta_Rv3594	1.282	1.676
delta_Rv3717	1.063	1.952
delta_Rv3811	1.386	1.56
delta_Rv0954	0.813	1.324
PonA1	1.343	0.972
EccD1_KO	-0.704	0.155
EspI_KO	-0.04	0.807
PE35_KO	0.041	-0.07
PPE68_KO	-0.48	-0.841
glycerol2	-0.556	0.024
lignocerate	-0.415	0.212
oleate	-0.027	-0.421
phosphatidylcholine	-0.499	0.046
acetate	-0.579	0.081
glucAc	-0.236	0.326
Rv0950ko	-0.6	0.078
Rv1096ko	-1.3	0.513
Rv3684ko	-0.452	-0.085
delta_otsA_trehalose	0.197	-0.052