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 Rv1743/pknE

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

	Rv2191/-	Rv1743/pknE
Fe_supp_jason_reseq	0.0	0.095
low_pH_jason_reseq	-0.979	-0.303
NO_jason_reseq	0.318	-0.032
B6_jason_reseq	0.376	-0.224
MHCII_jason_reseq	0.0	-0.204
Isoniazid02	0.437	0.399
Rifampicin4	0.712	-0.246
Ethambutol3	0.311	0.353
Meropenem3	0.694	-0.109
Vancomycin16	0.576	-0.106
Rv2680_day32	0.546	1.007
H37Rv_KO_MarP	-0.727	-0.47
hypoxia_3wks	0.622	0.957
hypoxia_6wks	1.019	1.931
glycerol	-0.108	0.073
cholesterol	0.435	-0.034
AJ	-0.168	0.175
Bibs02	0.348	0.487
Bibs02c	0.25	-0.544
BL6	0.597	0.067
BL6a	0.469	0.175
BXD01	0.088	0.775
BXD010	0.158	0.714
BXD011	0.713	0.128
BXD03	-0.054	0.261
BXD04	0.549	0.538
BXD05	-0.103	0.739
BXD06	0.37	0.327
BXD07	0.218	0.955
BXD08	0.71	0.78
BXD09	0.333	0.615
CAST	0.422	-0.022
CCcont	-0.423	-0.035
DS01	0.756	0.086
DS02	0.181	0.633
DS04	0.533	0.351
DS0c	0.476	0.308
GP01	0.499	0.785
GP02	0.694	1.057
GP0c	0.276	0.528
NOD	0.039	0.753
NZO	0.246	0.829
PWK	0.381	-0.131
H37Rv_KO_CtpC	0.225	-0.302
H37Rv_KO_CtpD	-0.268	-0.769
H37Rv_KO_Rv1272	0.618	0.843
H37Rv_KO_SugABC	0.324	0.409
H37Rv_KO_MbtN	0.229	0.29
Trans05	0.515	0.515
macrophage_unactivated	-0.136	0.369
IL1	0.225	0.225
Rapamycin	0.147	0.19
Tcell	-0.202	0.14
GMCSF	0.156	0.201
IFNab	-0.342	0.115
IFNg	-0.032	0.251
IFNg_GMCSF1	-0.522	0.151
Rv1432_day32	0.893	0.362
Rv1565c_day32	-0.081	0.412
secA2_input	0.607	0.152
delta_Rv3594	-0.281	-1.034
delta_Rv3717	-0.26	-0.517
delta_Rv3811	-0.512	-0.518
delta_Rv0954	-0.142	-0.41
PonA1	-0.015	-0.541
EccD1_KO	0.474	0.128
EspI_KO	0.291	0.148
PE35_KO	-0.755	-0.365
PPE68_KO	-0.582	-0.128
glycerol2	0.185	0.193
lignocerate	0.387	0.0
oleate	0.359	0.122
phosphatidylcholine	0.197	0.053
acetate	-0.066	-0.193
glucAc	0.227	-0.278
Rv0950ko	0.184	0.654
Rv1096ko	0.287	0.235
Rv3684ko	0.255	0.282
delta_otsA_trehalose	1.379	0.108