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 Rv2191/-:

update plot	correlation	link to info on gene
Rv0183/-	(cc=0.5368)	info on Rv0183/-
Rv2892c/PPE45	(cc=0.4812)	info on Rv2892c/PPE45
Rv0515/-	(cc=0.4747)	info on Rv0515/-
Rv0878c/PPE13	(cc=0.4624)	info on Rv0878c/PPE13
Rv0336/-	(cc=0.462)	info on Rv0336/-
Rv1743/pknE	(cc=0.4557)	info on Rv1743/pknE
Rv1546/-	(cc=0.4464)	info on Rv1546/-
Rv2994/-	(cc=0.4423)	info on Rv2994/-
Rv0458/-	(cc=0.4312)	info on Rv0458/-
Rv0877/-	(cc=0.4301)	info on Rv0877/-

Correlation of Rv2191/- with Rv0515/-

Normalized LFCs for Rv2191/-:
(description and provenance of datasets)

	Rv2191/-	Rv0515/-
Fe_supp_jason_reseq	0.0	0.237
low_pH_jason_reseq	-0.979	-1.26
NO_jason_reseq	0.318	0.228
B6_jason_reseq	0.376	-0.109
MHCII_jason_reseq	0.0	0.314
Isoniazid02	0.437	0.141
Rifampicin4	0.712	0.788
Ethambutol3	0.311	0.118
Meropenem3	0.694	0.763
Vancomycin16	0.576	0.257
Rv2680_day32	0.546	-0.13
H37Rv_KO_MarP	-0.727	-0.04
hypoxia_3wks	0.622	0.211
hypoxia_6wks	1.019	-0.223
glycerol	-0.108	-0.079
cholesterol	0.435	0.076
AJ	-0.168	0.598
Bibs02	0.348	0.633
Bibs02c	0.25	1.128
BL6	0.597	-0.053
BL6a	0.469	0.643
BXD01	0.088	0.086
BXD010	0.158	0.351
BXD011	0.713	-0.225
BXD03	-0.054	0.355
BXD04	0.549	0.502
BXD05	-0.103	0.253
BXD06	0.37	-0.04
BXD07	0.218	0.11
BXD08	0.71	0.184
BXD09	0.333	0.037
CAST	0.422	0.677
CCcont	-0.423	-0.109
DS01	0.756	0.977
DS02	0.181	0.531
DS04	0.533	0.651
DS0c	0.476	0.503
GP01	0.499	0.358
GP02	0.694	0.564
GP0c	0.276	0.023
NOD	0.039	0.61
NZO	0.246	0.669
PWK	0.381	0.827
H37Rv_KO_CtpC	0.225	0.934
H37Rv_KO_CtpD	-0.268	0.69
H37Rv_KO_Rv1272	0.618	0.317
H37Rv_KO_SugABC	0.324	0.466
H37Rv_KO_MbtN	0.229	0.597
Trans05	0.515	0.393
macrophage_unactivated	-0.136	-0.609
IL1	0.225	-0.884
Rapamycin	0.147	-0.562
Tcell	-0.202	-1.18
GMCSF	0.156	-0.333
IFNab	-0.342	-1.004
IFNg	-0.032	-0.19
IFNg_GMCSF1	-0.522	-0.575
Rv1432_day32	0.893	0.274
Rv1565c_day32	-0.081	-0.234
secA2_input	0.607	0.013
delta_Rv3594	-0.281	-0.768
delta_Rv3717	-0.26	-0.574
delta_Rv3811	-0.512	-0.672
delta_Rv0954	-0.142	-0.638
PonA1	-0.015	-0.517
EccD1_KO	0.474	0.388
EspI_KO	0.291	0.248
PE35_KO	-0.755	0.335
PPE68_KO	-0.582	0.083
glycerol2	0.185	0.249
lignocerate	0.387	0.234
oleate	0.359	-0.135
phosphatidylcholine	0.197	0.111
acetate	-0.066	0.165
glucAc	0.227	0.338
Rv0950ko	0.184	0.452
Rv1096ko	0.287	0.265
Rv3684ko	0.255	0.373
delta_otsA_trehalose	1.379	0.594