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 Rv2947c/pks15

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

	Rv2352c/PPE38	Rv2947c/pks15
Fe_supp_jason_reseq	0.35	-0.232
low_pH_jason_reseq	-1.029	-0.918
NO_jason_reseq	-0.491	-0.263
B6_jason_reseq	-0.488	-0.674
MHCII_jason_reseq	-0.46	-0.437
Isoniazid02	-1.043	-1.55
Rifampicin4	-0.208	0.222
Ethambutol3	-0.882	-0.967
Meropenem3	-1.085	-0.809
Vancomycin16	-0.602	-0.634
Rv2680_day32	-0.611	-0.55
H37Rv_KO_MarP	-0.629	-0.322
hypoxia_3wks	-0.06	1.009
hypoxia_6wks	-0.56	0.514
glycerol	0.532	0.14
cholesterol	0.575	-0.031
AJ	0.321	-0.44
Bibs02	0.203	0.465
Bibs02c	0.297	0.103
BL6	0.173	0.852
BL6a	0.425	0.267
BXD01	0.346	0.546
BXD010	-0.031	0.287
BXD011	-0.232	0.25
BXD03	0.503	0.48
BXD04	0.661	0.708
BXD05	0.358	0.351
BXD06	0.167	0.494
BXD07	0.22	-0.054
BXD08	0.298	0.539
BXD09	0.376	-0.061
CAST	0.235	-0.14
CCcont	-0.032	0.293
DS01	0.267	0.192
DS02	0.17	-0.038
DS04	0.554	0.842
DS0c	0.179	0.126
GP01	0.253	0.584
GP02	0.349	0.151
GP0c	0.348	-0.006
NOD	-0.184	-0.293
NZO	0.393	-0.368
PWK	0.06	0.342
H37Rv_KO_CtpC	0.169	1.048
H37Rv_KO_CtpD	0.659	-0.017
H37Rv_KO_Rv1272	1.248	0.966
H37Rv_KO_SugABC	0.005	0.609
H37Rv_KO_MbtN	0.457	0.417
Trans05	1.088	0.552
macrophage_unactivated	0.511	0.505
IL1	-0.11	0.113
Rapamycin	0.037	-0.709
Tcell	-0.495	0.411
GMCSF	0.533	0.238
IFNab	0.054	0.115
IFNg	0.088	-0.075
IFNg_GMCSF1	0.364	0.886
Rv1432_day32	0.407	-0.512
Rv1565c_day32	-0.141	-1.281
secA2_input	-0.626	-0.013
delta_Rv3594	0.583	0.488
delta_Rv3717	-0.374	0.313
delta_Rv3811	0.268	0.474
delta_Rv0954	0.289	-0.217
PonA1	0.085	0.287
EccD1_KO	-0.566	0.289
EspI_KO	-0.031	0.251
PE35_KO	0.105	0.846
PPE68_KO	0.275	1.008
glycerol2	0.167	0.238
lignocerate	-0.169	-0.158
oleate	-0.004	0.241
phosphatidylcholine	-0.224	0.262
acetate	-0.047	-0.545
glucAc	0.016	-0.258
Rv0950ko	0.277	-0.069
Rv1096ko	-0.012	0.054
Rv3684ko	-0.134	-0.766
delta_otsA_trehalose	0.184	0.244