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 Rv1980c/mpt64

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

	Rv2286c/-	Rv1980c/mpt64
Fe_supp_jason_reseq	-0.799	0.183
low_pH_jason_reseq	-0.052	-1.272
NO_jason_reseq	-0.081	0.822
B6_jason_reseq	-0.688	-0.773
MHCII_jason_reseq	-0.484	-0.494
Isoniazid02	-0.054	-0.544
Rifampicin4	-1.007	0.13
Ethambutol3	-0.584	-0.855
Meropenem3	-0.435	-0.122
Vancomycin16	-0.138	-0.164
Rv2680_day32	0.898	0.222
H37Rv_KO_MarP	-0.246	0.031
hypoxia_3wks	0.096	0.076
hypoxia_6wks	0.198	-0.113
glycerol	-0.908	-0.272
cholesterol	-1.314	-0.083
AJ	0.382	0.292
Bibs02	1.003	-0.246
Bibs02c	-0.182	-0.203
BL6	1.322	0.961
BL6a	0.234	0.816
BXD01	-0.07	0.798
BXD010	0.431	1.359
BXD011	0.243	1.252
BXD03	0.326	1.45
BXD04	0.063	1.749
BXD05	0.042	1.489
BXD06	0.17	1.461
BXD07	0.558	0.985
BXD08	0.013	0.887
BXD09	0.699	0.884
CAST	-0.307	0.197
CCcont	0.219	0.425
DS01	-0.287	-1.211
DS02	-0.397	-0.107
DS04	-0.61	-0.859
DS0c	0.432	-0.586
GP01	1.435	-0.291
GP02	-0.52	-0.407
GP0c	0.092	0.121
NOD	0.023	0.342
NZO	0.432	0.211
PWK	1.304	1.593
H37Rv_KO_CtpC	1.458	0.703
H37Rv_KO_CtpD	1.137	1.443
H37Rv_KO_Rv1272	0.954	1.209
H37Rv_KO_SugABC	-1.775	-1.353
H37Rv_KO_MbtN	0.657	1.634
Trans05	1.095	1.601
macrophage_unactivated	0.672	0.069
IL1	0.519	-0.047
Rapamycin	0.654	0.233
Tcell	0.57	0.062
GMCSF	0.251	0.248
IFNab	0.227	0.405
IFNg	0.086	0.703
IFNg_GMCSF1	1.2	0.333
Rv1432_day32	0.327	0.66
Rv1565c_day32	-0.493	-0.234
secA2_input	0.186	-0.571
delta_Rv3594	0.959	0.101
delta_Rv3717	0.174	0.15
delta_Rv3811	1.038	-0.006
delta_Rv0954	1.001	-0.047
PonA1	0.613	-0.335
EccD1_KO	0.431	-0.016
EspI_KO	0.399	0.75
PE35_KO	-0.117	0.811
PPE68_KO	0.243	0.669
glycerol2	0.311	0.196
lignocerate	-0.017	-0.619
oleate	0.465	1.321
phosphatidylcholine	0.311	-0.296
acetate	0.224	-0.392
glucAc	1.153	-0.583
Rv0950ko	-0.739	0.368
Rv1096ko	0.884	-0.271
Rv3684ko	-0.18	-0.475
delta_otsA_trehalose	0.648	0.706