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 Rv2286c/-:

update plot	correlation	link to info on gene
Rv1662/pks8	(cc=0.5405)	info on Rv1662/pks8
Rv1964/yrbE3A	(cc=0.4348)	info on Rv1964/yrbE3A
Rv3070/-	(cc=0.4133)	info on Rv3070/-
Rv1076/lipU	(cc=0.4132)	info on Rv1076/lipU
Rv0346c/ansP2	(cc=0.4094)	info on Rv0346c/ansP2
Rv2767c/-	(cc=0.4075)	info on Rv2767c/-
Rv1557/mmpL6	(cc=0.4048)	info on Rv1557/mmpL6
Rv1980c/mpt64	(cc=0.4005)	info on Rv1980c/mpt64
Rv2558/-	(cc=0.3882)	info on Rv2558/-
Rv2231c/cobC	(cc=0.3881)	info on Rv2231c/cobC

Correlation of Rv2286c/- with Rv2231c/cobC

Normalized LFCs for Rv2286c/-:
(description and provenance of datasets)

	Rv2286c/-	Rv2231c/cobC
Fe_supp_jason_reseq	-0.799	-0.463
low_pH_jason_reseq	-0.052	-0.1
NO_jason_reseq	-0.081	-0.079
B6_jason_reseq	-0.688	-1.435
MHCII_jason_reseq	-0.484	-0.893
Isoniazid02	-0.054	-0.581
Rifampicin4	-1.007	0.133
Ethambutol3	-0.584	-0.158
Meropenem3	-0.435	-0.363
Vancomycin16	-0.138	-0.568
Rv2680_day32	0.898	0.811
H37Rv_KO_MarP	-0.246	-1.507
hypoxia_3wks	0.096	0.467
hypoxia_6wks	0.198	1.205
glycerol	-0.908	0.162
cholesterol	-1.314	-0.264
AJ	0.382	-0.424
Bibs02	1.003	0.946
Bibs02c	-0.182	-0.182
BL6	1.322	0.477
BL6a	0.234	1.122
BXD01	-0.07	1.214
BXD010	0.431	0.629
BXD011	0.243	1.498
BXD03	0.326	1.088
BXD04	0.063	2.739
BXD05	0.042	1.863
BXD06	0.17	1.947
BXD07	0.558	1.383
BXD08	0.013	2.292
BXD09	0.699	1.614
CAST	-0.307	-0.791
CCcont	0.219	1.202
DS01	-0.287	0.0
DS02	-0.397	-0.189
DS04	-0.61	-0.453
DS0c	0.432	1.383
GP01	1.435	0.0
GP02	-0.52	-0.286
GP0c	0.092	-0.113
NOD	0.023	-0.905
NZO	0.432	1.225
PWK	1.304	-0.171
H37Rv_KO_CtpC	1.458	0.571
H37Rv_KO_CtpD	1.137	-0.591
H37Rv_KO_Rv1272	0.954	1.338
H37Rv_KO_SugABC	-1.775	0.586
H37Rv_KO_MbtN	0.657	1.226
Trans05	1.095	1.536
macrophage_unactivated	0.672	1.922
IL1	0.519	1.139
Rapamycin	0.654	1.669
Tcell	0.57	1.189
GMCSF	0.251	1.014
IFNab	0.227	0.683
IFNg	0.086	0.82
IFNg_GMCSF1	1.2	1.546
Rv1432_day32	0.327	-0.618
Rv1565c_day32	-0.493	-1.989
secA2_input	0.186	-0.62
delta_Rv3594	0.959	2.709
delta_Rv3717	0.174	2.718
delta_Rv3811	1.038	2.314
delta_Rv0954	1.001	1.773
PonA1	0.613	1.506
EccD1_KO	0.431	0.201
EspI_KO	0.399	-0.787
PE35_KO	-0.117	0.265
PPE68_KO	0.243	0.099
glycerol2	0.311	0.0
lignocerate	-0.017	0.082
oleate	0.465	0.539
phosphatidylcholine	0.311	0.213
acetate	0.224	-0.283
glucAc	1.153	-0.405
Rv0950ko	-0.739	0.395
Rv1096ko	0.884	0.202
Rv3684ko	-0.18	0.0
delta_otsA_trehalose	0.648	0.58