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 Rv2721c/-:

update plot	correlation	link to info on gene
Rv1334/mec	(cc=0.6386)	info on Rv1334/mec
Rv1336/cysM	(cc=0.615)	info on Rv1336/cysM
Rv2722/-	(cc=0.583)	info on Rv2722/-
Rv3842c/glpQ1	(cc=0.5726)	info on Rv3842c/glpQ1
Rv0877/-	(cc=0.5564)	info on Rv0877/-
Rv1337/-	(cc=0.5551)	info on Rv1337/-
Rv1546/-	(cc=0.5285)	info on Rv1546/-
Rv3419c/gcp	(cc=0.5089)	info on Rv3419c/gcp
Rv0047c/-	(cc=0.5086)	info on Rv0047c/-
Rv0183/-	(cc=0.4965)	info on Rv0183/-

Correlation of Rv2721c/- with Rv0183/-

Normalized LFCs for Rv2721c/-:
(description and provenance of datasets)

	Rv2721c/-	Rv0183/-
Fe_supp_jason_reseq	-2.837	-1.193
low_pH_jason_reseq	-0.529	-0.045
NO_jason_reseq	2.3	0.591
B6_jason_reseq	0.429	1.202
MHCII_jason_reseq	-0.858	0.326
Isoniazid02	1.486	0.147
Rifampicin4	2.231	0.98
Ethambutol3	-0.439	0.75
Meropenem3	2.082	0.228
Vancomycin16	-0.738	0.21
Rv2680_day32	-0.384	1.174
H37Rv_KO_MarP	-0.47	-1.641
hypoxia_3wks	0.965	1.463
hypoxia_6wks	2.957	2.234
glycerol	-0.262	0.528
cholesterol	0.358	0.483
AJ	-0.024	-0.921
Bibs02	-0.109	0.23
Bibs02c	-0.677	0.443
BL6	0.481	1.514
BL6a	0.408	0.749
BXD01	0.676	0.526
BXD010	0.875	0.574
BXD011	1.091	1.51
BXD03	1.083	0.244
BXD04	1.654	1.241
BXD05	0.924	0.878
BXD06	1.501	1.071
BXD07	0.721	1.235
BXD08	0.778	0.827
BXD09	0.469	0.899
CAST	0.853	0.782
CCcont	-0.211	-0.257
DS01	-1.128	0.029
DS02	-1.475	-0.577
DS04	-0.36	0.569
DS0c	-1.193	-0.563
GP01	1.362	1.714
GP02	0.963	1.073
GP0c	1.455	1.239
NOD	0.602	-0.399
NZO	0.04	0.822
PWK	1.851	0.0
H37Rv_KO_CtpC	-0.94	-1.697
H37Rv_KO_CtpD	0.542	-0.876
H37Rv_KO_Rv1272	-0.183	-0.091
H37Rv_KO_SugABC	0.602	0.839
H37Rv_KO_MbtN	1.345	0.402
Trans05	0.662	1.125
macrophage_unactivated	-0.846	-1.064
IL1	-0.196	0.009
Rapamycin	-0.516	-0.239
Tcell	-0.264	-0.29
GMCSF	-0.04	0.177
IFNab	0.339	0.435
IFNg	-0.326	0.0
IFNg_GMCSF1	-0.434	-0.075
Rv1432_day32	-0.404	1.737
Rv1565c_day32	0.945	1.24
secA2_input	-0.128	0.26
delta_Rv3594	0.262	-0.601
delta_Rv3717	0.683	0.771
delta_Rv3811	0.578	-0.019
delta_Rv0954	0.066	-0.689
PonA1	-0.829	-0.375
EccD1_KO	-0.079	-0.398
EspI_KO	-0.277	-0.776
PE35_KO	0.114	-1.266
PPE68_KO	-0.618	-1.459
glycerol2	-0.673	0.703
lignocerate	-1.168	1.153
oleate	1.056	-0.498
phosphatidylcholine	-2.244	0.015
acetate	-0.374	0.437
glucAc	-0.403	0.34
Rv0950ko	0.28	-0.229
Rv1096ko	0.0	0.727
Rv3684ko	0.878	0.557
delta_otsA_trehalose	0.575	-0.067