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 Rv3224B/-:

update plot	correlation	link to info on gene
Rv3224A/-	(cc=0.5299)	info on Rv3224A/-
Rv3335c/-	(cc=0.522)	info on Rv3335c/-
Rv2077A/-	(cc=0.5179)	info on Rv2077A/-
Rv0060/-	(cc=0.5046)	info on Rv0060/-
Rv3819/-	(cc=0.4792)	info on Rv3819/-
Rv3127/-	(cc=0.4743)	info on Rv3127/-
Rv2821c/-	(cc=0.473)	info on Rv2821c/-
Rv0312/-	(cc=0.4683)	info on Rv0312/-
Rv0042c/-	(cc=0.4667)	info on Rv0042c/-
Rv1987/-	(cc=0.4655)	info on Rv1987/-

Correlation of Rv3224B/- with Rv3819/-

Normalized LFCs for Rv3224B/-:
(description and provenance of datasets)

	Rv3224B/-	Rv3819/-
Fe_supp_jason_reseq	1.613	-0.451
low_pH_jason_reseq	0.582	-0.833
NO_jason_reseq	1.003	-0.452
B6_jason_reseq	1.336	-0.8
MHCII_jason_reseq	-0.043	-0.487
Isoniazid02	0.0	-0.799
Rifampicin4	0.43	-0.255
Ethambutol3	-0.204	-0.342
Meropenem3	2.432	-0.285
Vancomycin16	-0.202	-0.249
Rv2680_day32	1.574	0.188
H37Rv_KO_MarP	-0.34	1.153
hypoxia_3wks	-1.798	-1.348
hypoxia_6wks	-0.764	-0.942
glycerol	-1.318	-0.705
cholesterol	-0.644	-1.165
AJ	0.338	-1.706
Bibs02	1.041	-0.816
Bibs02c	0.32	-0.321
BL6	2.331	1.018
BL6a	0.016	-0.603
BXD01	0.306	0.406
BXD010	-0.741	0.566
BXD011	-0.167	-0.777
BXD03	0.361	-0.581
BXD04	0.999	0.28
BXD05	-0.022	-0.295
BXD06	-0.239	-0.446
BXD07	0.12	0.602
BXD08	0.422	0.382
BXD09	-0.917	-0.58
CAST	0.384	0.756
CCcont	0.0	1.057
DS01	-0.905	0.736
DS02	0.156	-0.148
DS04	-1.487	0.843
DS0c	-1.483	-1.501
GP01	0.393	-2.323
GP02	-1.146	-0.576
GP0c	0.18	-2.26
NOD	-0.037	2.603
NZO	0.829	0.47
PWK	-0.134	1.017
H37Rv_KO_CtpC	-1.011	-0.401
H37Rv_KO_CtpD	2.225	0.763
H37Rv_KO_Rv1272	-1.207	-0.833
H37Rv_KO_SugABC	-0.776	-0.316
H37Rv_KO_MbtN	0.961	-0.854
Trans05	0.957	-0.605
macrophage_unactivated	1.285	0.956
IL1	-1.99	-1.922
Rapamycin	-0.546	-1.703
Tcell	1.942	0.476
GMCSF	-0.784	-1.584
IFNab	-0.426	-1.542
IFNg	0.583	-1.732
IFNg_GMCSF1	-1.2	-2.19
Rv1432_day32	0.321	0.374
Rv1565c_day32	-1.093	0.556
secA2_input	0.167	-1.446
delta_Rv3594	0.382	-0.304
delta_Rv3717	-1.565	-1.016
delta_Rv3811	1.008	0.586
delta_Rv0954	0.27	0.129
PonA1	-0.851	-0.527
EccD1_KO	-1.092	0.724
EspI_KO	-2.738	0.248
PE35_KO	-2.033	-0.362
PPE68_KO	-0.749	0.624
glycerol2	2.191	1.651
lignocerate	2.565	2.557
oleate	-1.167	-0.556
phosphatidylcholine	2.333	2.018
acetate	3.501	4.972
glucAc	2.476	2.696
Rv0950ko	0.112	0.148
Rv1096ko	0.531	1.215
Rv3684ko	0.062	0.514
delta_otsA_trehalose	-0.835	1.218