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 Rv2527/vapC17:

update plot	correlation	link to info on gene
Rv3124/moaR1	(cc=0.4896)	info on Rv3124/moaR1
Rv2274A/mazE8	(cc=0.4648)	info on Rv2274A/mazE8
Rv0798c/cfp29	(cc=0.4558)	info on Rv0798c/cfp29
Rv2562/-	(cc=0.4527)	info on Rv2562/-
Rv2548/vapC19	(cc=0.4482)	info on Rv2548/vapC19
Rv2818c/-	(cc=0.4313)	info on Rv2818c/-
Rv0596c/vapB4	(cc=0.426)	info on Rv0596c/vapB4
Rv3383c/idsB	(cc=0.4253)	info on Rv3383c/idsB
Rv2276/cyp121	(cc=0.4213)	info on Rv2276/cyp121
Rv1938/ephB	(cc=0.4159)	info on Rv1938/ephB

Correlation of Rv2527/vapC17 with Rv3124/moaR1

Normalized LFCs for Rv2527/vapC17:
(description and provenance of datasets)

	Rv2527/vapC17	Rv3124/moaR1
Fe_supp_jason_reseq	0.923	0.259
low_pH_jason_reseq	0.758	0.806
NO_jason_reseq	0.089	0.252
B6_jason_reseq	-0.707	-0.175
MHCII_jason_reseq	0.526	0.203
Isoniazid02	0.195	0.124
Rifampicin4	-0.027	-0.393
Ethambutol3	-0.126	0.989
Meropenem3	-0.286	1.097
Vancomycin16	0.52	0.499
Rv2680_day32	0.78	1.338
H37Rv_KO_MarP	0.0	-0.102
hypoxia_3wks	-0.096	-0.323
hypoxia_6wks	0.219	0.397
glycerol	-0.373	-0.051
cholesterol	-0.822	-0.708
AJ	-0.719	0.197
Bibs02	0.955	0.971
Bibs02c	-1.458	0.127
BL6	1.226	0.982
BL6a	0.405	0.729
BXD01	1.132	1.054
BXD010	0.154	0.641
BXD011	1.138	1.144
BXD03	0.718	0.623
BXD04	0.824	0.896
BXD05	1.311	0.941
BXD06	0.797	0.924
BXD07	1.032	0.95
BXD08	1.115	0.706
BXD09	1.159	1.104
CAST	0.305	0.472
CCcont	1.421	1.024
DS01	0.768	0.255
DS02	0.176	0.08
DS04	0.929	0.024
DS0c	1.095	0.377
GP01	-0.584	0.561
GP02	-0.979	-0.552
GP0c	0.381	0.154
NOD	-0.34	1.071
NZO	0.082	0.51
PWK	-0.465	0.806
H37Rv_KO_CtpC	0.806	0.366
H37Rv_KO_CtpD	1.658	0.949
H37Rv_KO_Rv1272	0.571	1.189
H37Rv_KO_SugABC	0.879	1.435
H37Rv_KO_MbtN	-0.747	0.974
Trans05	0.749	0.734
macrophage_unactivated	1.042	0.65
IL1	0.362	0.098
Rapamycin	0.304	0.298
Tcell	1.544	0.414
GMCSF	0.977	-0.275
IFNab	-0.079	0.1
IFNg	-1.008	-0.059
IFNg_GMCSF1	0.236	0.368
Rv1432_day32	0.07	-0.592
Rv1565c_day32	0.046	0.253
secA2_input	-0.103	-1.0
delta_Rv3594	1.221	0.164
delta_Rv3717	0.656	0.182
delta_Rv3811	-0.062	-0.062
delta_Rv0954	-0.638	0.138
PonA1	-0.126	-0.032
EccD1_KO	0.77	0.493
EspI_KO	0.388	0.627
PE35_KO	1.269	0.986
PPE68_KO	1.238	1.353
glycerol2	0.787	0.106
lignocerate	1.08	0.774
oleate	0.564	-0.068
phosphatidylcholine	0.64	0.468
acetate	0.815	0.535
glucAc	0.997	1.081
Rv0950ko	1.128	0.899
Rv1096ko	0.157	0.118
Rv3684ko	0.802	0.373
delta_otsA_trehalose	0.051	0.853