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 Rv3916c/-

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

	Rv1081c/-	Rv3916c/-
Fe_supp_jason_reseq	0.415	2.161
low_pH_jason_reseq	0.0	-0.44
NO_jason_reseq	0.0	-0.69
B6_jason_reseq	0.0	-0.14
MHCII_jason_reseq	0.0	-0.257
Isoniazid02	-0.65	0.773
Rifampicin4	-0.872	-2.296
Ethambutol3	0.22	0.353
Meropenem3	-0.386	-1.016
Vancomycin16	-1.186	-1.769
Rv2680_day32	0.095	0.0
H37Rv_KO_MarP	2.237	2.259
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	-0.867
glycerol	0.0	0.0
cholesterol	0.398	0.0
AJ	0.0	0.0
Bibs02	0.0	0.183
Bibs02c	0.0	0.0
BL6	0.125	0.0
BL6a	0.198	0.839
BXD01	0.13	0.64
BXD010	0.0	1.425
BXD011	0.54	0.987
BXD03	0.0	0.258
BXD04	0.124	0.434
BXD05	0.473	0.0
BXD06	0.366	0.469
BXD07	0.0	0.264
BXD08	0.0	0.467
BXD09	0.494	0.494
CAST	0.0	0.0
CCcont	0.285	3.514
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.37	0.194
DS0c	0.0	0.217
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.798	0.901
H37Rv_KO_CtpD	0.0	0.127
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.0	0.099
H37Rv_KO_MbtN	0.633	0.506
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.193
IL1	0.0	-1.554
Rapamycin	0.0	-0.402
Tcell	0.0	-1.153
GMCSF	0.0	-0.533
IFNab	0.0	0.535
IFNg	0.0	-0.738
IFNg_GMCSF1	0.0	-1.37
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.218
secA2_input	0.739	0.496
delta_Rv3594	-1.205	0.22
delta_Rv3717	-0.555	-0.992
delta_Rv3811	-0.369	0.41
delta_Rv0954	-0.207	1.607
PonA1	0.389	2.048
EccD1_KO	0.286	1.519
EspI_KO	-0.55	0.134
PE35_KO	0.0	0.067
PPE68_KO	-0.298	1.638
glycerol2	0.0	0.542
lignocerate	0.0	0.0
oleate	0.0	0.665
phosphatidylcholine	0.0	0.289
acetate	0.0	0.78
glucAc	0.0	0.565
Rv0950ko	0.0	-0.398
Rv1096ko	-0.302	-0.706
Rv3684ko	1.117	0.285
delta_otsA_trehalose	-1.098	0.164