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 Rv3905c/esxF:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3748/-	(cc=0.5574)	info on Rv3748/-
Rv0816c/thiX	(cc=0.5)	info on Rv0816c/thiX
Rv3741c/-	(cc=0.4942)	info on Rv3741c/-
Rv0870c/-	(cc=0.4906)	info on Rv0870c/-
Rv1711/-	(cc=0.4859)	info on Rv1711/-
Rv3605c/-	(cc=0.4546)	info on Rv3605c/-
Rv1249c/-	(cc=0.4374)	info on Rv1249c/-
Rv1442/bisC	(cc=0.4242)	info on Rv1442/bisC
Rv2908c/-	(cc=0.4201)	info on Rv2908c/-
Rv2323c/-	(cc=0.4179)	info on Rv2323c/-

Correlation of Rv3905c/esxF with Rv3748/-

Normalized LFCs for Rv3905c/esxF:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3905c/esxF	Rv3748/-
Fe_supp_jason_reseq	0.022	-1.045
low_pH_jason_reseq	-0.184	-0.038
NO_jason_reseq	-0.753	-1.985
B6_jason_reseq	0.239	-1.097
MHCII_jason_reseq	-0.027	-0.578
Isoniazid02	-0.787	0.704
Rifampicin4	0.295	0.336
Ethambutol3	1.584	0.734
Meropenem3	-0.083	0.343
Vancomycin16	-0.172	0.414
Rv2680_day32	0.57	2.69
H37Rv_KO_MarP	-0.072	0.288
hypoxia_3wks	-0.463	-0.542
hypoxia_6wks	-0.645	-0.436
glycerol	-0.926	-2.319
cholesterol	-0.242	-1.309
AJ	-0.516	0.318
Bibs02	-1.208	-0.121
Bibs02c	-0.15	1.094
BL6	-0.121	-0.776
BL6a	-1.055	1.274
BXD01	-0.465	-0.277
BXD010	0.033	-0.597
BXD011	-0.624	-0.423
BXD03	-1.1	-0.365
BXD04	0.223	-0.99
BXD05	-0.906	-1.975
BXD06	-0.148	-0.269
BXD07	-0.514	0.062
BXD08	-0.026	0.354
BXD09	-0.542	-0.331
CAST	-0.561	-1.208
CCcont	-0.439	0.119
DS01	0.046	-0.044
DS02	-0.364	0.827
DS04	-0.038	0.235
DS0c	-0.413	-0.979
GP01	0.275	-0.489
GP02	-0.234	0.215
GP0c	-0.665	1.364
NOD	-0.68	0.5
NZO	0.253	0.107
PWK	-0.335	-0.092
H37Rv_KO_CtpC	0.099	1.278
H37Rv_KO_CtpD	-0.362	1.43
H37Rv_KO_Rv1272	-1.661	-1.337
H37Rv_KO_SugABC	-1.017	-0.939
H37Rv_KO_MbtN	-0.382	0.424
Trans05	-0.816	-1.823
macrophage_unactivated	0.205	-0.893
IL1	0.193	-0.353
Rapamycin	-0.393	-0.868
Tcell	-0.398	-0.811
GMCSF	0.562	0.325
IFNab	-0.49	0.293
IFNg	0.147	-1.251
IFNg_GMCSF1	-0.562	-0.625
Rv1432_day32	0.871	1.271
Rv1565c_day32	0.453	0.777
secA2_input	-1.467	-0.684
delta_Rv3594	-1.135	-2.582
delta_Rv3717	-1.791	-2.931
delta_Rv3811	-0.818	-2.477
delta_Rv0954	-1.417	-2.49
PonA1	0.19	-0.762
EccD1_KO	-0.592	0.345
EspI_KO	0.807	1.058
PE35_KO	-0.77	-0.718
PPE68_KO	-1.011	-0.678
glycerol2	0.321	1.171
lignocerate	0.395	1.336
oleate	-0.096	0.425
phosphatidylcholine	-0.256	1.099
acetate	1.209	1.219
glucAc	0.485	1.197
Rv0950ko	-0.057	0.422
Rv1096ko	0.458	0.718
Rv3684ko	0.498	0.874
delta_otsA_trehalose	-0.267	0.691