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 Rv1081c/-:

update plot	correlation	link to info on gene
Rv0537c/-	(cc=0.5682)	info on Rv0537c/-
Rv3067/-	(cc=0.5503)	info on Rv3067/-
Rv0062/celA1	(cc=0.5082)	info on Rv0062/celA1
Rv0538/-	(cc=0.4837)	info on Rv0538/-
Rv1458c/-	(cc=0.4693)	info on Rv1458c/-
Rv2908c/-	(cc=0.4638)	info on Rv2908c/-
Rv2375/-	(cc=0.4553)	info on Rv2375/-
Rv3916c/-	(cc=0.4543)	info on Rv3916c/-
Rv1845c/blaR	(cc=0.4414)	info on Rv1845c/blaR
Rv2926c/-	(cc=0.4261)	info on Rv2926c/-

Correlation of Rv1081c/- with Rv3067/-

Normalized LFCs for Rv1081c/-:
(description and provenance of datasets)

	Rv1081c/-	Rv3067/-
Fe_supp_jason_reseq	0.415	-0.107
low_pH_jason_reseq	0.0	-0.01
NO_jason_reseq	0.0	0.441
B6_jason_reseq	0.0	0.459
MHCII_jason_reseq	0.0	1.163
Isoniazid02	-0.65	-0.693
Rifampicin4	-0.872	-2.45
Ethambutol3	0.22	1.308
Meropenem3	-0.386	-1.058
Vancomycin16	-1.186	-4.444
Rv2680_day32	0.095	0.207
H37Rv_KO_MarP	2.237	4.472
hypoxia_3wks	0.0	-0.566
hypoxia_6wks	0.0	0.052
glycerol	0.0	-1.277
cholesterol	0.398	-0.611
AJ	0.0	0.343
Bibs02	0.0	-0.215
Bibs02c	0.0	0.197
BL6	0.125	0.326
BL6a	0.198	0.247
BXD01	0.13	-0.163
BXD010	0.0	-0.412
BXD011	0.54	-0.279
BXD03	0.0	0.378
BXD04	0.124	-0.319
BXD05	0.473	-0.611
BXD06	0.366	0.236
BXD07	0.0	0.01
BXD08	0.0	0.337
BXD09	0.494	-0.43
CAST	0.0	0.444
CCcont	0.285	-0.471
DS01	0.0	0.452
DS02	0.0	-0.596
DS04	0.37	0.752
DS0c	0.0	0.388
GP01	0.0	-0.374
GP02	0.0	-0.567
GP0c	0.0	-0.828
NOD	0.0	1.243
NZO	0.0	-0.748
PWK	0.0	0.047
H37Rv_KO_CtpC	0.798	-0.341
H37Rv_KO_CtpD	0.0	-1.415
H37Rv_KO_Rv1272	0.0	0.407
H37Rv_KO_SugABC	0.0	0.676
H37Rv_KO_MbtN	0.633	-0.069
Trans05	0.0	-0.122
macrophage_unactivated	0.0	-0.679
IL1	0.0	-0.347
Rapamycin	0.0	-0.359
Tcell	0.0	-0.912
GMCSF	0.0	0.098
IFNab	0.0	-1.348
IFNg	0.0	-0.871
IFNg_GMCSF1	0.0	0.33
Rv1432_day32	0.0	-0.638
Rv1565c_day32	0.0	0.215
secA2_input	0.739	-1.135
delta_Rv3594	-1.205	-0.806
delta_Rv3717	-0.555	-0.627
delta_Rv3811	-0.369	-0.41
delta_Rv0954	-0.207	-0.271
PonA1	0.389	0.472
EccD1_KO	0.286	0.115
EspI_KO	-0.55	0.274
PE35_KO	0.0	0.397
PPE68_KO	-0.298	0.557
glycerol2	0.0	0.699
lignocerate	0.0	0.756
oleate	0.0	0.632
phosphatidylcholine	0.0	0.978
acetate	0.0	-0.118
glucAc	0.0	-0.193
Rv0950ko	0.0	-0.525
Rv1096ko	-0.302	-0.44
Rv3684ko	1.117	0.131
delta_otsA_trehalose	-1.098	0.035