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 Rv2806/-

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

	Rv1996/-	Rv2806/-
Fe_supp_jason_reseq	-0.134	-0.54
low_pH_jason_reseq	-0.254	-1.087
NO_jason_reseq	0.176	-0.992
B6_jason_reseq	0.208	-0.321
MHCII_jason_reseq	0.085	0.315
Isoniazid02	-1.052	-0.589
Rifampicin4	-0.42	-0.495
Ethambutol3	-1.014	-0.754
Meropenem3	-0.618	-0.621
Vancomycin16	-0.812	-0.045
Rv2680_day32	-0.73	-0.554
H37Rv_KO_MarP	-0.073	0.023
hypoxia_3wks	-0.056	1.196
hypoxia_6wks	0.34	1.063
glycerol	-0.097	0.513
cholesterol	-0.393	-1.016
AJ	0.208	1.407
Bibs02	0.174	0.343
Bibs02c	-0.05	-0.808
BL6	0.383	-0.483
BL6a	0.482	-0.036
BXD01	-0.178	1.022
BXD010	0.37	0.486
BXD011	1.465	0.584
BXD03	1.255	0.325
BXD04	0.601	0.308
BXD05	0.664	0.544
BXD06	0.343	0.394
BXD07	0.124	1.055
BXD08	0.235	0.866
BXD09	0.62	0.482
CAST	0.105	0.093
CCcont	-0.08	-0.766
DS01	0.286	0.135
DS02	0.638	0.947
DS04	0.62	0.354
DS0c	0.297	0.418
GP01	-0.632	0.576
GP02	-1.583	0.207
GP0c	-0.949	-0.269
NOD	-0.308	-0.449
NZO	0.629	1.428
PWK	0.165	1.144
H37Rv_KO_CtpC	-0.358	0.84
H37Rv_KO_CtpD	-1.134	-1.44
H37Rv_KO_Rv1272	0.527	1.179
H37Rv_KO_SugABC	0.403	0.568
H37Rv_KO_MbtN	0.364	1.216
Trans05	0.117	1.05
macrophage_unactivated	0.382	0.237
IL1	-0.323	-0.208
Rapamycin	0.236	0.307
Tcell	-0.283	0.701
GMCSF	0.507	-0.586
IFNab	-0.263	-0.435
IFNg	0.083	-0.094
IFNg_GMCSF1	-0.676	-0.163
Rv1432_day32	-0.089	0.733
Rv1565c_day32	0.734	-0.539
secA2_input	0.238	-0.218
delta_Rv3594	1.282	2.226
delta_Rv3717	1.063	1.441
delta_Rv3811	1.386	2.28
delta_Rv0954	0.813	1.567
PonA1	1.343	0.925
EccD1_KO	-0.704	0.0
EspI_KO	-0.04	-0.026
PE35_KO	0.041	0.42
PPE68_KO	-0.48	0.637
glycerol2	-0.556	0.205
lignocerate	-0.415	-0.393
oleate	-0.027	1.009
phosphatidylcholine	-0.499	0.356
acetate	-0.579	-0.735
glucAc	-0.236	-1.598
Rv0950ko	-0.6	0.516
Rv1096ko	-1.3	-0.187
Rv3684ko	-0.452	0.265
delta_otsA_trehalose	0.197	-0.492