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 Rv0069c/sdaA:

update plot	correlation	link to info on gene
Rv0338c/-	(cc=0.7502)	info on Rv0338c/-
Rv0320/-	(cc=0.5463)	info on Rv0320/-
Rv0191/-	(cc=0.4888)	info on Rv0191/-
Rv0373c/-	(cc=0.4568)	info on Rv0373c/-
Rv2189c/-	(cc=0.4479)	info on Rv2189c/-
Rv2715/-	(cc=0.4477)	info on Rv2715/-
Rv3068c/pgmA	(cc=0.4325)	info on Rv3068c/pgmA
Rv2394/ggtB	(cc=0.4302)	info on Rv2394/ggtB
Rv1317c/alkA	(cc=0.4268)	info on Rv1317c/alkA
Rv2073c/-	(cc=0.4251)	info on Rv2073c/-

Correlation of Rv0069c/sdaA with Rv2073c/-

Normalized LFCs for Rv0069c/sdaA:
(description and provenance of datasets)

	Rv0069c/sdaA	Rv2073c/-
Fe_supp_jason_reseq	0.205	-0.893
low_pH_jason_reseq	-1.367	-0.358
NO_jason_reseq	-1.265	0.924
B6_jason_reseq	-0.208	0.104
MHCII_jason_reseq	0.127	-0.216
Isoniazid02	-0.049	0.311
Rifampicin4	-0.233	-1.18
Ethambutol3	0.627	-0.202
Meropenem3	0.278	-0.798
Vancomycin16	0.836	-1.47
Rv2680_day32	-0.372	0.191
H37Rv_KO_MarP	0.217	-1.175
hypoxia_3wks	-0.319	0.439
hypoxia_6wks	-0.299	0.313
glycerol	2.392	0.85
cholesterol	6.0	4.139
AJ	0.187	0.541
Bibs02	-0.592	0.33
Bibs02c	0.196	-0.138
BL6	0.084	-0.017
BL6a	0.307	-0.881
BXD01	-0.154	-1.569
BXD010	-0.171	-1.581
BXD011	0.68	-0.832
BXD03	-0.631	-1.017
BXD04	-0.425	-1.23
BXD05	-0.223	-0.607
BXD06	-0.038	-1.164
BXD07	-0.207	-0.859
BXD08	0.329	-1.132
BXD09	0.076	-0.323
CAST	-0.976	-0.504
CCcont	0.176	-0.685
DS01	-0.279	0.157
DS02	-0.325	0.058
DS04	-1.036	-0.215
DS0c	0.363	0.803
GP01	0.265	0.849
GP02	-0.138	0.423
GP0c	0.639	0.613
NOD	-1.596	-0.817
NZO	-1.472	1.156
PWK	0.183	-1.105
H37Rv_KO_CtpC	0.213	0.204
H37Rv_KO_CtpD	-1.75	1.25
H37Rv_KO_Rv1272	-0.72	0.006
H37Rv_KO_SugABC	0.94	1.134
H37Rv_KO_MbtN	1.301	-0.179
Trans05	-0.5	0.808
macrophage_unactivated	0.18	-0.499
IL1	0.383	1.471
Rapamycin	0.807	0.512
Tcell	0.42	0.046
GMCSF	-0.264	0.792
IFNab	1.167	0.541
IFNg	0.249	0.072
IFNg_GMCSF1	-0.512	0.33
Rv1432_day32	0.415	1.021
Rv1565c_day32	-0.355	-0.038
secA2_input	1.656	0.473
delta_Rv3594	-0.783	-0.422
delta_Rv3717	-0.2	0.233
delta_Rv3811	0.299	-0.122
delta_Rv0954	0.399	-0.143
PonA1	0.943	-0.508
EccD1_KO	0.802	1.697
EspI_KO	-0.645	0.559
PE35_KO	0.055	0.618
PPE68_KO	0.781	0.653
glycerol2	0.171	-0.064
lignocerate	0.183	0.363
oleate	-0.264	-1.46
phosphatidylcholine	-0.067	-0.223
acetate	-0.191	0.214
glucAc	-0.249	0.229
Rv0950ko	0.582	0.681
Rv1096ko	0.582	0.875
Rv3684ko	-0.069	0.468
delta_otsA_trehalose	0.027	0.315