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 Rv2954c/-:

update plot	correlation	link to info on gene
Rv2345/-	(cc=0.5093)	info on Rv2345/-
Rv3323c/moaX	(cc=0.5085)	info on Rv3323c/moaX
Rv1981c/nrdF1	(cc=0.5056)	info on Rv1981c/nrdF1
Rv3164c/moxR3	(cc=0.5047)	info on Rv3164c/moxR3
Rv2675c/-	(cc=0.5015)	info on Rv2675c/-
Rv1175c/fadH	(cc=0.4701)	info on Rv1175c/fadH
Rv2429/ahpD	(cc=0.4693)	info on Rv2429/ahpD
Rv2602/vapC41	(cc=0.4588)	info on Rv2602/vapC41
Rv0940c/-	(cc=0.4577)	info on Rv0940c/-
Rv1511/gmdA	(cc=0.4575)	info on Rv1511/gmdA

Correlation of Rv2954c/- with Rv3164c/moxR3

Normalized LFCs for Rv2954c/-:
(description and provenance of datasets)

	Rv2954c/-	Rv3164c/moxR3
Fe_supp_jason_reseq	0.18	0.107
low_pH_jason_reseq	-1.161	-1.762
NO_jason_reseq	-0.412	-0.811
B6_jason_reseq	-0.145	-1.21
MHCII_jason_reseq	-0.033	-0.2
Isoniazid02	-0.723	-0.204
Rifampicin4	0.241	-0.799
Ethambutol3	-0.405	-0.529
Meropenem3	-0.68	-0.444
Vancomycin16	-0.17	0.032
Rv2680_day32	0.205	0.194
H37Rv_KO_MarP	-0.069	0.106
hypoxia_3wks	-0.104	0.566
hypoxia_6wks	0.052	0.111
glycerol	0.439	1.033
cholesterol	-0.029	-0.463
AJ	-0.123	0.497
Bibs02	-0.449	-0.25
Bibs02c	-0.631	-2.29
BL6	0.216	1.299
BL6a	0.263	0.24
BXD01	0.268	1.025
BXD010	0.447	1.598
BXD011	0.468	0.516
BXD03	0.66	1.485
BXD04	0.546	0.753
BXD05	0.644	0.873
BXD06	0.056	0.267
BXD07	0.194	1.16
BXD08	-0.063	0.68
BXD09	0.494	0.422
CAST	-0.053	1.353
CCcont	0.171	0.892
DS01	-0.062	-0.638
DS02	-0.169	-0.981
DS04	0.222	1.015
DS0c	0.368	-0.041
GP01	1.056	0.802
GP02	-0.374	-0.53
GP0c	-0.138	0.954
NOD	0.812	0.737
NZO	0.012	0.975
PWK	0.347	-0.352
H37Rv_KO_CtpC	-0.465	1.037
H37Rv_KO_CtpD	0.501	2.368
H37Rv_KO_Rv1272	1.286	1.059
H37Rv_KO_SugABC	0.428	1.873
H37Rv_KO_MbtN	0.066	0.516
Trans05	0.423	1.083
macrophage_unactivated	-0.076	0.701
IL1	-0.641	-0.504
Rapamycin	0.055	-1.175
Tcell	-0.394	0.052
GMCSF	-0.05	0.623
IFNab	-0.357	-0.248
IFNg	0.206	1.045
IFNg_GMCSF1	1.178	0.657
Rv1432_day32	0.631	0.501
Rv1565c_day32	0.605	0.408
secA2_input	-0.775	-1.495
delta_Rv3594	0.083	0.021
delta_Rv3717	-0.186	0.123
delta_Rv3811	0.311	0.338
delta_Rv0954	0.075	-0.665
PonA1	0.5	-1.846
EccD1_KO	0.234	-0.753
EspI_KO	0.482	0.653
PE35_KO	0.846	0.347
PPE68_KO	0.419	0.666
glycerol2	1.092	0.126
lignocerate	0.822	-0.093
oleate	1.143	0.753
phosphatidylcholine	1.049	0.314
acetate	0.007	-0.801
glucAc	-0.026	-0.81
Rv0950ko	0.223	0.25
Rv1096ko	-0.63	-1.218
Rv3684ko	-0.082	0.498
delta_otsA_trehalose	0.216	-0.313