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 Rv3667/acs:

update plot	correlation	link to info on gene
Rv0425c/ctpH	(cc=0.5582)	info on Rv0425c/ctpH
Rv1683/-	(cc=0.5409)	info on Rv1683/-
Rv2185c/TB16.3	(cc=0.5394)	info on Rv2185c/TB16.3
Rv1925/fadD31	(cc=0.5341)	info on Rv1925/fadD31
Rv0645c/mmaA1	(cc=0.5272)	info on Rv0645c/mmaA1
Rv1805c/-	(cc=0.525)	info on Rv1805c/-
Rv3837c/-	(cc=0.5219)	info on Rv3837c/-
Rv3814c/-	(cc=0.5087)	info on Rv3814c/-
Rv3148/nuoD	(cc=0.4969)	info on Rv3148/nuoD
Rv0211/pckA	(cc=0.4944)	info on Rv0211/pckA

Correlation of Rv3667/acs with Rv3837c/-

Normalized LFCs for Rv3667/acs:
(description and provenance of datasets)

	Rv3667/acs	Rv3837c/-
Fe_supp_jason_reseq	-0.065	-1.359
low_pH_jason_reseq	-0.341	-0.808
NO_jason_reseq	-0.882	0.186
B6_jason_reseq	0.172	0.079
MHCII_jason_reseq	-0.04	0.267
Isoniazid02	0.439	-1.291
Rifampicin4	-1.11	0.257
Ethambutol3	-0.629	0.063
Meropenem3	0.042	-0.55
Vancomycin16	-0.647	0.22
Rv2680_day32	0.406	1.501
H37Rv_KO_MarP	0.831	0.73
hypoxia_3wks	-0.195	-0.79
hypoxia_6wks	0.505	-0.497
glycerol	-0.088	0.61
cholesterol	0.689	0.683
AJ	0.116	-0.077
Bibs02	-0.23	0.452
Bibs02c	0.121	0.208
BL6	1.023	1.461
BL6a	0.505	0.403
BXD01	1.42	1.452
BXD010	0.631	1.033
BXD011	0.654	1.281
BXD03	0.499	0.907
BXD04	0.388	0.916
BXD05	0.641	0.807
BXD06	0.903	1.259
BXD07	0.835	0.629
BXD08	0.77	1.014
BXD09	0.543	0.898
CAST	0.477	0.647
CCcont	0.551	0.619
DS01	0.371	0.198
DS02	0.358	-0.024
DS04	0.319	0.031
DS0c	0.734	-0.519
GP01	0.448	-0.196
GP02	0.137	-0.127
GP0c	-0.068	0.752
NOD	-0.35	-0.233
NZO	0.163	0.247
PWK	0.365	0.82
H37Rv_KO_CtpC	-0.568	-0.861
H37Rv_KO_CtpD	-0.16	1.037
H37Rv_KO_Rv1272	0.553	1.052
H37Rv_KO_SugABC	0.81	0.783
H37Rv_KO_MbtN	0.485	1.328
Trans05	0.866	1.742
macrophage_unactivated	-0.158	0.088
IL1	0.353	-0.771
Rapamycin	0.525	-0.988
Tcell	0.313	0.635
GMCSF	-0.066	-0.686
IFNab	-0.308	-0.302
IFNg	-0.045	-0.551
IFNg_GMCSF1	0.05	0.584
Rv1432_day32	1.145	1.567
Rv1565c_day32	-0.144	0.275
secA2_input	0.872	0.65
delta_Rv3594	0.109	0.613
delta_Rv3717	0.886	1.258
delta_Rv3811	0.706	-0.228
delta_Rv0954	-0.603	-0.637
PonA1	0.159	-0.234
EccD1_KO	-0.464	-0.5
EspI_KO	-0.653	-0.462
PE35_KO	-0.601	-1.52
PPE68_KO	-0.698	-0.992
glycerol2	2.044	0.933
lignocerate	0.0	-0.05
oleate	0.713	1.085
phosphatidylcholine	0.496	0.315
acetate	0.973	0.479
glucAc	1.35	-0.702
Rv0950ko	-0.398	-0.341
Rv1096ko	-0.175	-0.157
Rv3684ko	0.291	-0.77
delta_otsA_trehalose	-0.22	-0.372