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 Rv0183/-

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

	Rv2191/-	Rv0183/-
Fe_supp_jason_reseq	0.0	-1.193
low_pH_jason_reseq	-0.979	-0.045
NO_jason_reseq	0.318	0.591
B6_jason_reseq	0.376	1.202
MHCII_jason_reseq	0.0	0.326
Isoniazid02	0.437	0.147
Rifampicin4	0.712	0.98
Ethambutol3	0.311	0.75
Meropenem3	0.694	0.228
Vancomycin16	0.576	0.21
Rv2680_day32	0.546	1.174
H37Rv_KO_MarP	-0.727	-1.641
hypoxia_3wks	0.622	1.463
hypoxia_6wks	1.019	2.234
glycerol	-0.108	0.528
cholesterol	0.435	0.483
AJ	-0.168	-0.921
Bibs02	0.348	0.23
Bibs02c	0.25	0.443
BL6	0.597	1.514
BL6a	0.469	0.749
BXD01	0.088	0.526
BXD010	0.158	0.574
BXD011	0.713	1.51
BXD03	-0.054	0.244
BXD04	0.549	1.241
BXD05	-0.103	0.878
BXD06	0.37	1.071
BXD07	0.218	1.235
BXD08	0.71	0.827
BXD09	0.333	0.899
CAST	0.422	0.782
CCcont	-0.423	-0.257
DS01	0.756	0.029
DS02	0.181	-0.577
DS04	0.533	0.569
DS0c	0.476	-0.563
GP01	0.499	1.714
GP02	0.694	1.073
GP0c	0.276	1.239
NOD	0.039	-0.399
NZO	0.246	0.822
PWK	0.381	0.0
H37Rv_KO_CtpC	0.225	-1.697
H37Rv_KO_CtpD	-0.268	-0.876
H37Rv_KO_Rv1272	0.618	-0.091
H37Rv_KO_SugABC	0.324	0.839
H37Rv_KO_MbtN	0.229	0.402
Trans05	0.515	1.125
macrophage_unactivated	-0.136	-1.064
IL1	0.225	0.009
Rapamycin	0.147	-0.239
Tcell	-0.202	-0.29
GMCSF	0.156	0.177
IFNab	-0.342	0.435
IFNg	-0.032	0.0
IFNg_GMCSF1	-0.522	-0.075
Rv1432_day32	0.893	1.737
Rv1565c_day32	-0.081	1.24
secA2_input	0.607	0.26
delta_Rv3594	-0.281	-0.601
delta_Rv3717	-0.26	0.771
delta_Rv3811	-0.512	-0.019
delta_Rv0954	-0.142	-0.689
PonA1	-0.015	-0.375
EccD1_KO	0.474	-0.398
EspI_KO	0.291	-0.776
PE35_KO	-0.755	-1.266
PPE68_KO	-0.582	-1.459
glycerol2	0.185	0.703
lignocerate	0.387	1.153
oleate	0.359	-0.498
phosphatidylcholine	0.197	0.015
acetate	-0.066	0.437
glucAc	0.227	0.34
Rv0950ko	0.184	-0.229
Rv1096ko	0.287	0.727
Rv3684ko	0.255	0.557
delta_otsA_trehalose	1.379	-0.067