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 Rv3323c/moaX

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

	Rv2954c/-	Rv3323c/moaX
Fe_supp_jason_reseq	0.18	-0.489
low_pH_jason_reseq	-1.161	-0.979
NO_jason_reseq	-0.412	0.108
B6_jason_reseq	-0.145	-0.72
MHCII_jason_reseq	-0.033	-0.19
Isoniazid02	-0.723	-1.218
Rifampicin4	0.241	-0.241
Ethambutol3	-0.405	-1.009
Meropenem3	-0.68	-1.305
Vancomycin16	-0.17	-0.682
Rv2680_day32	0.205	-0.133
H37Rv_KO_MarP	-0.069	0.236
hypoxia_3wks	-0.104	-0.14
hypoxia_6wks	0.052	-0.449
glycerol	0.439	0.505
cholesterol	-0.029	0.13
AJ	-0.123	0.124
Bibs02	-0.449	0.011
Bibs02c	-0.631	-0.491
BL6	0.216	0.344
BL6a	0.263	0.055
BXD01	0.268	0.091
BXD010	0.447	-0.511
BXD011	0.468	0.114
BXD03	0.66	-0.023
BXD04	0.546	-0.369
BXD05	0.644	-0.085
BXD06	0.056	0.072
BXD07	0.194	-0.031
BXD08	-0.063	-0.231
BXD09	0.494	0.023
CAST	-0.053	0.013
CCcont	0.171	0.3
DS01	-0.062	-0.758
DS02	-0.169	0.047
DS04	0.222	0.468
DS0c	0.368	0.239
GP01	1.056	0.507
GP02	-0.374	-0.353
GP0c	-0.138	0.632
NOD	0.812	0.542
NZO	0.012	-0.296
PWK	0.347	0.59
H37Rv_KO_CtpC	-0.465	0.053
H37Rv_KO_CtpD	0.501	-0.043
H37Rv_KO_Rv1272	1.286	0.039
H37Rv_KO_SugABC	0.428	0.114
H37Rv_KO_MbtN	0.066	0.903
Trans05	0.423	-0.43
macrophage_unactivated	-0.076	-0.331
IL1	-0.641	0.314
Rapamycin	0.055	0.371
Tcell	-0.394	0.319
GMCSF	-0.05	0.217
IFNab	-0.357	-0.079
IFNg	0.206	-0.428
IFNg_GMCSF1	1.178	1.037
Rv1432_day32	0.631	0.716
Rv1565c_day32	0.605	0.956
secA2_input	-0.775	-0.661
delta_Rv3594	0.083	0.182
delta_Rv3717	-0.186	-0.076
delta_Rv3811	0.311	-0.01
delta_Rv0954	0.075	0.009
PonA1	0.5	0.492
EccD1_KO	0.234	-0.779
EspI_KO	0.482	-0.074
PE35_KO	0.846	-0.23
PPE68_KO	0.419	-0.387
glycerol2	1.092	0.928
lignocerate	0.822	1.346
oleate	1.143	0.313
phosphatidylcholine	1.049	1.095
acetate	0.007	0.454
glucAc	-0.026	0.473
Rv0950ko	0.223	-0.311
Rv1096ko	-0.63	0.492
Rv3684ko	-0.082	0.151
delta_otsA_trehalose	0.216	0.364