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 Rv2558/-

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

	Rv2286c/-	Rv2558/-
Fe_supp_jason_reseq	-0.799	-0.021
low_pH_jason_reseq	-0.052	0.815
NO_jason_reseq	-0.081	0.226
B6_jason_reseq	-0.688	-0.969
MHCII_jason_reseq	-0.484	-0.241
Isoniazid02	-0.054	-2.203
Rifampicin4	-1.007	-1.633
Ethambutol3	-0.584	-1.734
Meropenem3	-0.435	-1.416
Vancomycin16	-0.138	-1.73
Rv2680_day32	0.898	0.877
H37Rv_KO_MarP	-0.246	-0.066
hypoxia_3wks	0.096	-0.574
hypoxia_6wks	0.198	-0.564
glycerol	-0.908	0.197
cholesterol	-1.314	-0.069
AJ	0.382	0.217
Bibs02	1.003	-0.105
Bibs02c	-0.182	-0.764
BL6	1.322	-0.49
BL6a	0.234	0.26
BXD01	-0.07	0.048
BXD010	0.431	0.933
BXD011	0.243	-0.269
BXD03	0.326	0.0
BXD04	0.063	0.227
BXD05	0.042	0.154
BXD06	0.17	-0.352
BXD07	0.558	0.27
BXD08	0.013	0.201
BXD09	0.699	-0.388
CAST	-0.307	0.073
CCcont	0.219	0.393
DS01	-0.287	-0.033
DS02	-0.397	0.466
DS04	-0.61	0.181
DS0c	0.432	0.39
GP01	1.435	0.777
GP02	-0.52	0.019
GP0c	0.092	1.058
NOD	0.023	0.778
NZO	0.432	0.724
PWK	1.304	0.509
H37Rv_KO_CtpC	1.458	0.305
H37Rv_KO_CtpD	1.137	1.664
H37Rv_KO_Rv1272	0.954	-0.621
H37Rv_KO_SugABC	-1.775	0.347
H37Rv_KO_MbtN	0.657	0.57
Trans05	1.095	0.431
macrophage_unactivated	0.672	0.877
IL1	0.519	0.273
Rapamycin	0.654	0.199
Tcell	0.57	-0.205
GMCSF	0.251	0.283
IFNab	0.227	0.463
IFNg	0.086	-0.342
IFNg_GMCSF1	1.2	0.575
Rv1432_day32	0.327	-0.445
Rv1565c_day32	-0.493	-0.499
secA2_input	0.186	0.695
delta_Rv3594	0.959	1.826
delta_Rv3717	0.174	0.552
delta_Rv3811	1.038	0.571
delta_Rv0954	1.001	1.689
PonA1	0.613	0.878
EccD1_KO	0.431	0.635
EspI_KO	0.399	-0.325
PE35_KO	-0.117	0.502
PPE68_KO	0.243	-0.038
glycerol2	0.311	-0.705
lignocerate	-0.017	-0.028
oleate	0.465	-0.081
phosphatidylcholine	0.311	-0.436
acetate	0.224	0.878
glucAc	1.153	0.561
Rv0950ko	-0.739	-0.16
Rv1096ko	0.884	-0.326
Rv3684ko	-0.18	-1.932
delta_otsA_trehalose	0.648	-0.347