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 Rv2352c/PPE38:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.5845)	info on Rv0160c/PE4
Rv3161c/-	(cc=0.5722)	info on Rv3161c/-
Rv0354c/PPE7	(cc=0.5707)	info on Rv0354c/PPE7
Rv1504c/-	(cc=0.5614)	info on Rv1504c/-
Rv2947c/pks15	(cc=0.5506)	info on Rv2947c/pks15
Rv1278/-	(cc=0.5437)	info on Rv1278/-
Rv3919c/gid	(cc=0.5421)	info on Rv3919c/gid
Rv0073/-	(cc=0.5416)	info on Rv0073/-
Rv0469/umaA	(cc=0.5381)	info on Rv0469/umaA
Rv2853/PE_PGRS48	(cc=0.5372)	info on Rv2853/PE_PGRS48

Correlation of Rv2352c/PPE38 with Rv0160c/PE4

Normalized LFCs for Rv2352c/PPE38:
(description and provenance of datasets)

	Rv2352c/PPE38	Rv0160c/PE4
Fe_supp_jason_reseq	0.35	0.011
low_pH_jason_reseq	-1.029	-0.07
NO_jason_reseq	-0.491	-0.11
B6_jason_reseq	-0.488	0.416
MHCII_jason_reseq	-0.46	0.302
Isoniazid02	-1.043	-1.8
Rifampicin4	-0.208	0.208
Ethambutol3	-0.882	-0.931
Meropenem3	-1.085	-1.482
Vancomycin16	-0.602	-0.836
Rv2680_day32	-0.611	-0.088
H37Rv_KO_MarP	-0.629	0.748
hypoxia_3wks	-0.06	-0.191
hypoxia_6wks	-0.56	-0.175
glycerol	0.532	0.471
cholesterol	0.575	0.477
AJ	0.321	0.062
Bibs02	0.203	0.886
Bibs02c	0.297	0.584
BL6	0.173	0.188
BL6a	0.425	0.375
BXD01	0.346	-0.029
BXD010	-0.031	-0.023
BXD011	-0.232	0.241
BXD03	0.503	0.15
BXD04	0.661	0.354
BXD05	0.358	0.048
BXD06	0.167	0.316
BXD07	0.22	0.182
BXD08	0.298	0.338
BXD09	0.376	0.032
CAST	0.235	0.427
CCcont	-0.032	-0.148
DS01	0.267	0.281
DS02	0.17	0.584
DS04	0.554	0.126
DS0c	0.179	-0.141
GP01	0.253	0.358
GP02	0.349	1.382
GP0c	0.348	-0.229
NOD	-0.184	0.364
NZO	0.393	0.887
PWK	0.06	0.193
H37Rv_KO_CtpC	0.169	0.447
H37Rv_KO_CtpD	0.659	1.091
H37Rv_KO_Rv1272	1.248	1.015
H37Rv_KO_SugABC	0.005	0.612
H37Rv_KO_MbtN	0.457	0.485
Trans05	1.088	0.807
macrophage_unactivated	0.511	-0.354
IL1	-0.11	0.098
Rapamycin	0.037	0.239
Tcell	-0.495	-0.248
GMCSF	0.533	-0.09
IFNab	0.054	0.039
IFNg	0.088	0.294
IFNg_GMCSF1	0.364	0.085
Rv1432_day32	0.407	0.339
Rv1565c_day32	-0.141	0.458
secA2_input	-0.626	-0.333
delta_Rv3594	0.583	-0.099
delta_Rv3717	-0.374	-0.239
delta_Rv3811	0.268	-0.223
delta_Rv0954	0.289	0.358
PonA1	0.085	0.126
EccD1_KO	-0.566	-0.444
EspI_KO	-0.031	0.074
PE35_KO	0.105	-0.446
PPE68_KO	0.275	-0.221
glycerol2	0.167	0.276
lignocerate	-0.169	0.284
oleate	-0.004	0.216
phosphatidylcholine	-0.224	0.387
acetate	-0.047	0.083
glucAc	0.016	0.264
Rv0950ko	0.277	0.479
Rv1096ko	-0.012	-0.13
Rv3684ko	-0.134	0.134
delta_otsA_trehalose	0.184	0.026