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 Rv1546/-:

update plot	correlation	link to info on gene
Rv2721c/-	(cc=0.5285)	info on Rv2721c/-
Rv0644c/mmaA2	(cc=0.5251)	info on Rv0644c/mmaA2
Rv1336/cysM	(cc=0.5003)	info on Rv1336/cysM
Rv0183/-	(cc=0.4971)	info on Rv0183/-
Rv0877/-	(cc=0.4921)	info on Rv0877/-
Rv3842c/glpQ1	(cc=0.4863)	info on Rv3842c/glpQ1
Rv0645c/mmaA1	(cc=0.4861)	info on Rv0645c/mmaA1
Rv1334/mec	(cc=0.4685)	info on Rv1334/mec
Rv0048c/-	(cc=0.4507)	info on Rv0048c/-
Rv2191/-	(cc=0.4464)	info on Rv2191/-

Correlation of Rv1546/- with Rv0877/-

Normalized LFCs for Rv1546/-:
(description and provenance of datasets)

	Rv1546/-	Rv0877/-
Fe_supp_jason_reseq	-1.364	-1.639
low_pH_jason_reseq	0.452	0.724
NO_jason_reseq	1.315	3.305
B6_jason_reseq	0.499	1.22
MHCII_jason_reseq	0.705	-2.252
Isoniazid02	0.208	5.11
Rifampicin4	0.923	0.566
Ethambutol3	-0.024	1.454
Meropenem3	1.798	1.624
Vancomycin16	0.297	-0.239
Rv2680_day32	0.993	1.68
H37Rv_KO_MarP	0.174	-1.421
hypoxia_3wks	1.647	0.79
hypoxia_6wks	1.576	3.067
glycerol	-0.999	-1.593
cholesterol	0.0	-1.617
AJ	0.292	-0.034
Bibs02	-0.013	-1.644
Bibs02c	-0.456	-1.478
BL6	0.777	1.26
BL6a	-0.432	0.319
BXD01	1.411	2.472
BXD010	-0.225	1.577
BXD011	0.766	2.37
BXD03	-0.517	0.932
BXD04	1.519	2.958
BXD05	0.631	1.299
BXD06	0.322	2.021
BXD07	0.986	1.091
BXD08	0.644	2.432
BXD09	1.048	1.504
CAST	0.823	1.119
CCcont	-1.829	-0.938
DS01	-0.31	-0.753
DS02	-0.714	0.744
DS04	0.769	0.35
DS0c	0.449	-1.092
GP01	1.724	-0.222
GP02	0.682	1.341
GP0c	1.278	0.237
NOD	1.259	0.335
NZO	0.324	0.926
PWK	0.828	2.786
H37Rv_KO_CtpC	0.419	2.358
H37Rv_KO_CtpD	-1.857	0.373
H37Rv_KO_Rv1272	1.129	0.206
H37Rv_KO_SugABC	-0.047	0.442
H37Rv_KO_MbtN	1.098	1.093
Trans05	1.966	1.163
macrophage_unactivated	-0.319	-2.43
IL1	0.231	0.264
Rapamycin	-1.068	-1.108
Tcell	0.254	0.6
GMCSF	-0.364	-0.708
IFNab	-1.119	-1.784
IFNg	-0.631	0.345
IFNg_GMCSF1	0.28	0.085
Rv1432_day32	1.587	1.226
Rv1565c_day32	0.873	-2.51
secA2_input	0.734	-0.238
delta_Rv3594	-0.506	-1.713
delta_Rv3717	1.626	0.111
delta_Rv3811	0.427	-2.104
delta_Rv0954	-0.187	-1.55
PonA1	-0.549	-1.43
EccD1_KO	-0.135	-0.493
EspI_KO	0.627	-0.325
PE35_KO	-0.715	-1.642
PPE68_KO	-0.531	-1.417
glycerol2	0.3	0.035
lignocerate	-0.58	-0.843
oleate	1.136	2.003
phosphatidylcholine	0.245	-0.332
acetate	-0.884	-0.14
glucAc	-1.069	-0.315
Rv0950ko	0.0	-0.018
Rv1096ko	-0.075	0.199
Rv3684ko	1.264	1.064
delta_otsA_trehalose	0.431	-0.393