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 Rv2078/-:

update plot	correlation	link to info on gene
Rv0596c/vapB4	(cc=0.5711)	info on Rv0596c/vapB4
Rv1471/trxB1	(cc=0.569)	info on Rv1471/trxB1
Rv3819/-	(cc=0.5624)	info on Rv3819/-
Rv1366/-	(cc=0.5622)	info on Rv1366/-
Rv2253/-	(cc=0.5485)	info on Rv2253/-
Rv3780/-	(cc=0.5428)	info on Rv3780/-
Rv3243c/-	(cc=0.534)	info on Rv3243c/-
Rv2077A/-	(cc=0.5327)	info on Rv2077A/-
Rv0207c/-	(cc=0.5269)	info on Rv0207c/-
Rv3112/moaD1	(cc=0.5265)	info on Rv3112/moaD1

Correlation of Rv2078/- with Rv1366/-

Normalized LFCs for Rv2078/-:
(description and provenance of datasets)

	Rv2078/-	Rv1366/-
Fe_supp_jason_reseq	-1.478	-0.884
low_pH_jason_reseq	1.154	-0.172
NO_jason_reseq	-3.715	-0.294
B6_jason_reseq	-1.004	-0.871
MHCII_jason_reseq	-1.831	-0.267
Isoniazid02	0.648	0.148
Rifampicin4	0.211	-0.376
Ethambutol3	-0.505	0.269
Meropenem3	-0.701	0.237
Vancomycin16	0.499	0.172
Rv2680_day32	0.0	-0.969
H37Rv_KO_MarP	1.411	0.518
hypoxia_3wks	-1.655	-0.235
hypoxia_6wks	2.629	-0.048
glycerol	-2.499	-0.78
cholesterol	-2.008	-0.44
AJ	-0.316	0.134
Bibs02	1.325	-0.823
Bibs02c	-0.674	0.656
BL6	0.307	0.376
BL6a	0.042	0.397
BXD01	2.42	0.834
BXD010	0.379	1.115
BXD011	1.575	0.35
BXD03	0.189	-0.278
BXD04	-0.472	0.315
BXD05	-0.151	0.231
BXD06	2.187	0.323
BXD07	0.673	0.476
BXD08	0.782	0.506
BXD09	1.71	-0.012
CAST	0.752	-0.142
CCcont	1.474	0.646
DS01	0.286	0.301
DS02	-0.296	-0.254
DS04	0.89	0.263
DS0c	0.343	0.525
GP01	-1.64	1.227
GP02	-1.382	1.296
GP0c	-2.16	0.54
NOD	1.347	0.148
NZO	-0.043	0.839
PWK	1.712	0.406
H37Rv_KO_CtpC	2.69	0.467
H37Rv_KO_CtpD	-2.104	-0.907
H37Rv_KO_Rv1272	2.043	0.341
H37Rv_KO_SugABC	2.4	0.902
H37Rv_KO_MbtN	0.369	0.392
Trans05	1.844	0.557
macrophage_unactivated	0.969	0.107
IL1	-1.157	-0.739
Rapamycin	-0.902	-0.681
Tcell	2.805	0.694
GMCSF	-1.912	-1.117
IFNab	-1.826	-0.593
IFNg	-1.462	-1.384
IFNg_GMCSF1	-3.026	-1.628
Rv1432_day32	-0.583	-0.55
Rv1565c_day32	0.0	0.175
secA2_input	2.129	-0.188
delta_Rv3594	0.069	-0.249
delta_Rv3717	1.576	0.371
delta_Rv3811	-2.357	-0.665
delta_Rv0954	-1.096	0.813
PonA1	-0.56	0.726
EccD1_KO	-0.148	-0.276
EspI_KO	-1.246	0.262
PE35_KO	1.275	0.379
PPE68_KO	1.238	0.534
glycerol2	4.047	1.188
lignocerate	4.212	1.47
oleate	0.0	0.387
phosphatidylcholine	3.961	1.27
acetate	5.772	1.549
glucAc	4.399	1.226
Rv0950ko	-0.742	0.856
Rv1096ko	-0.401	0.32
Rv3684ko	-0.141	0.534
delta_otsA_trehalose	-1.452	1.077