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 Rv3079c/-:

update plot	correlation	link to info on gene
Rv2297/-	(cc=0.4974)	info on Rv2297/-
Rv3040c/-	(cc=0.4692)	info on Rv3040c/-
Rv1168c/PPE17	(cc=0.4475)	info on Rv1168c/PPE17
Rv2410c/-	(cc=0.4343)	info on Rv2410c/-
Rv1074c/fadA3	(cc=0.4326)	info on Rv1074c/fadA3
Rv1208/gpgS	(cc=0.4307)	info on Rv1208/gpgS
Rv0853c/pdc	(cc=0.4291)	info on Rv0853c/pdc
Rv0865/mog	(cc=0.4272)	info on Rv0865/mog
Rv2624c/-	(cc=0.4272)	info on Rv2624c/-
Rv3057c/-	(cc=0.4262)	info on Rv3057c/-

Correlation of Rv3079c/- with Rv1168c/PPE17

Normalized LFCs for Rv3079c/-:
(description and provenance of datasets)

	Rv3079c/-	Rv1168c/PPE17
Fe_supp_jason_reseq	0.715	0.699
low_pH_jason_reseq	0.089	0.607
NO_jason_reseq	-0.234	-0.074
B6_jason_reseq	0.403	-0.071
MHCII_jason_reseq	-0.193	0.25
Isoniazid02	0.391	0.594
Rifampicin4	0.382	0.016
Ethambutol3	0.866	0.82
Meropenem3	0.178	0.283
Vancomycin16	0.536	0.26
Rv2680_day32	0.215	0.157
H37Rv_KO_MarP	-0.308	-0.183
hypoxia_3wks	-0.315	0.419
hypoxia_6wks	-0.267	-0.188
glycerol	-0.363	-0.238
cholesterol	0.255	-0.308
AJ	-0.647	-0.274
Bibs02	0.668	0.323
Bibs02c	-0.203	-0.229
BL6	-0.473	0.323
BL6a	-0.25	-0.159
BXD01	0.387	0.074
BXD010	0.254	0.339
BXD011	-0.281	-0.185
BXD03	-0.424	-0.36
BXD04	-0.516	-0.151
BXD05	-0.575	0.207
BXD06	0.11	0.061
BXD07	-0.422	0.032
BXD08	0.604	0.145
BXD09	-0.087	-0.178
CAST	-0.093	-0.137
CCcont	-0.794	-0.083
DS01	-0.229	-0.289
DS02	-0.072	0.058
DS04	-0.245	0.829
DS0c	-0.058	-0.878
GP01	-0.87	0.011
GP02	0.479	0.887
GP0c	-0.622	-0.386
NOD	-0.317	0.971
NZO	-1.061	-0.818
PWK	0.357	0.328
H37Rv_KO_CtpC	0.607	0.37
H37Rv_KO_CtpD	0.772	0.183
H37Rv_KO_Rv1272	0.248	0.231
H37Rv_KO_SugABC	-0.118	0.316
H37Rv_KO_MbtN	-0.526	0.398
Trans05	-0.053	0.84
macrophage_unactivated	0.786	1.133
IL1	1.308	-0.157
Rapamycin	0.954	0.138
Tcell	-0.186	0.254
GMCSF	0.779	0.319
IFNab	0.656	0.381
IFNg	1.323	0.436
IFNg_GMCSF1	1.471	0.264
Rv1432_day32	0.412	0.15
Rv1565c_day32	0.6	-0.046
secA2_input	-1.335	0.081
delta_Rv3594	0.283	0.0
delta_Rv3717	-0.789	-0.157
delta_Rv3811	-0.706	0.071
delta_Rv0954	0.013	-0.243
PonA1	-0.203	-0.032
EccD1_KO	1.161	0.391
EspI_KO	2.042	0.747
PE35_KO	1.059	0.688
PPE68_KO	1.193	0.31
glycerol2	0.362	0.73
lignocerate	-0.25	0.537
oleate	0.652	0.654
phosphatidylcholine	0.581	0.704
acetate	-0.341	-0.446
glucAc	-1.227	-0.61
Rv0950ko	0.347	-0.112
Rv1096ko	1.059	-0.685
Rv3684ko	0.583	0.255
delta_otsA_trehalose	1.549	0.813