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 Rv2591/PE_PGRS44:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1191/-	(cc=0.4738)	info on Rv1191/-
Rv1214c/PE14	(cc=0.4558)	info on Rv1214c/PE14
Rv3446c/-	(cc=0.4558)	info on Rv3446c/-
Rv0833/PE_PGRS13	(cc=0.43)	info on Rv0833/PE_PGRS13
Rv1767/-	(cc=0.4242)	info on Rv1767/-
Rv2183c/-	(cc=0.4208)	info on Rv2183c/-
Rv3555c/-	(cc=0.4069)	info on Rv3555c/-
Rv2870c/dxr	(cc=0.4011)	info on Rv2870c/dxr
Rv3713/cobQ2	(cc=0.4001)	info on Rv3713/cobQ2
Rv3344c/PE_PGRS49	(cc=0.3987)	info on Rv3344c/PE_PGRS49

Correlation of Rv2591/PE_PGRS44 with Rv1191/-

Normalized LFCs for Rv2591/PE_PGRS44:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2591/PE_PGRS44	Rv1191/-
Fe_supp_jason_reseq	-1.695	-1.689
low_pH_jason_reseq	1.337	-1.544
NO_jason_reseq	0.562	-0.546
B6_jason_reseq	-0.712	-1.175
MHCII_jason_reseq	0.148	0.137
Isoniazid02	0.017	-0.333
Rifampicin4	0.983	0.455
Ethambutol3	0.687	0.049
Meropenem3	1.72	3.004
Vancomycin16	0.676	-0.037
Rv2680_day32	-0.08	0.224
H37Rv_KO_MarP	0.154	0.096
hypoxia_3wks	0.686	0.195
hypoxia_6wks	-0.43	-0.487
glycerol	0.769	1.063
cholesterol	0.145	0.683
AJ	0.541	-0.385
Bibs02	0.813	-0.123
Bibs02c	0.453	-0.362
BL6	0.112	0.314
BL6a	0.769	-0.343
BXD01	0.525	0.772
BXD010	0.013	0.418
BXD011	0.485	0.183
BXD03	0.082	-0.342
BXD04	1.411	0.366
BXD05	0.38	-0.134
BXD06	0.207	-0.398
BXD07	0.606	-0.403
BXD08	0.778	1.069
BXD09	0.462	-0.409
CAST	-0.661	-0.43
CCcont	0.41	-0.971
DS01	0.074	-1.129
DS02	0.11	-1.252
DS04	-1.14	-0.193
DS0c	-0.713	-1.017
GP01	1.257	-0.018
GP02	0.952	1.19
GP0c	0.753	-0.473
NOD	-0.047	-1.316
NZO	1.081	-0.048
PWK	0.357	0.321
H37Rv_KO_CtpC	0.222	-0.498
H37Rv_KO_CtpD	0.778	-0.629
H37Rv_KO_Rv1272	0.1	0.732
H37Rv_KO_SugABC	0.248	-0.098
H37Rv_KO_MbtN	0.603	0.435
Trans05	-0.114	1.466
macrophage_unactivated	0.205	-0.379
IL1	-0.703	-1.204
Rapamycin	0.058	0.028
Tcell	-0.287	-0.088
GMCSF	-0.153	-0.951
IFNab	-0.617	-1.336
IFNg	0.126	-0.903
IFNg_GMCSF1	-0.606	-0.99
Rv1432_day32	0.484	-0.034
Rv1565c_day32	0.698	-0.472
secA2_input	-0.75	-0.883
delta_Rv3594	0.835	-0.541
delta_Rv3717	1.13	-0.209
delta_Rv3811	0.394	-0.39
delta_Rv0954	-0.109	0.382
PonA1	0.053	0.172
EccD1_KO	0.658	-0.46
EspI_KO	1.309	-1.041
PE35_KO	-0.067	-0.986
PPE68_KO	-0.182	-1.344
glycerol2	0.314	0.321
lignocerate	-0.029	-0.423
oleate	0.583	0.784
phosphatidylcholine	0.567	0.374
acetate	0.254	-0.545
glucAc	-0.465	-1.392
Rv0950ko	0.51	0.027
Rv1096ko	0.48	0.609
Rv3684ko	1.601	0.832
delta_otsA_trehalose	-0.591	-0.704