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 Rv3338/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2806/-	(cc=0.4736)	info on Rv2806/-
Rv1914c/-	(cc=0.4609)	info on Rv1914c/-
Rv1191/-	(cc=0.4412)	info on Rv1191/-
Rv0403c/mmpS1	(cc=0.415)	info on Rv0403c/mmpS1
Rv2057c/rpmG1	(cc=0.4077)	info on Rv2057c/rpmG1
Rv2774c/-	(cc=0.4075)	info on Rv2774c/-
Rv3735/-	(cc=0.4038)	info on Rv3735/-
Rv1748/-	(cc=0.4013)	info on Rv1748/-
Rv0765c/-	(cc=0.3983)	info on Rv0765c/-
Rv2885c/-	(cc=0.3814)	info on Rv2885c/-

Correlation of Rv3338/- with Rv2806/-

Normalized LFCs for Rv3338/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3338/-	Rv2806/-
Fe_supp_jason_reseq	-0.766	-0.54
low_pH_jason_reseq	-1.106	-1.087
NO_jason_reseq	-1.735	-0.992
B6_jason_reseq	-0.352	-0.321
MHCII_jason_reseq	-1.465	0.315
Isoniazid02	0.336	-0.589
Rifampicin4	-0.246	-0.495
Ethambutol3	0.17	-0.754
Meropenem3	-0.036	-0.621
Vancomycin16	-0.326	-0.045
Rv2680_day32	-2.697	-0.554
H37Rv_KO_MarP	0.337	0.023
hypoxia_3wks	1.013	1.196
hypoxia_6wks	0.453	1.063
glycerol	-0.347	0.513
cholesterol	-0.209	-1.016
AJ	0.309	1.407
Bibs02	-0.167	0.343
Bibs02c	-1.296	-0.808
BL6	1.162	-0.483
BL6a	-0.016	-0.036
BXD01	1.324	1.022
BXD010	0.01	0.486
BXD011	0.281	0.584
BXD03	1.874	0.325
BXD04	-0.308	0.308
BXD05	-1.283	0.544
BXD06	-0.698	0.394
BXD07	0.126	1.055
BXD08	1.481	0.866
BXD09	-0.547	0.482
CAST	0.432	0.093
CCcont	-1.154	-0.766
DS01	-1.531	0.135
DS02	-3.017	0.947
DS04	1.117	0.354
DS0c	-0.793	0.418
GP01	0.118	0.576
GP02	2.55	0.207
GP0c	0.295	-0.269
NOD	-0.675	-0.449
NZO	1.036	1.428
PWK	0.135	1.144
H37Rv_KO_CtpC	-0.613	0.84
H37Rv_KO_CtpD	-0.785	-1.44
H37Rv_KO_Rv1272	-0.999	1.179
H37Rv_KO_SugABC	-2.062	0.568
H37Rv_KO_MbtN	1.059	1.216
Trans05	1.581	1.05
macrophage_unactivated	-0.253	0.237
IL1	-1.219	-0.208
Rapamycin	-2.007	0.307
Tcell	-0.147	0.701
GMCSF	-0.341	-0.586
IFNab	-1.333	-0.435
IFNg	-1.139	-0.094
IFNg_GMCSF1	-1.153	-0.163
Rv1432_day32	0.18	0.733
Rv1565c_day32	-0.218	-0.539
secA2_input	-1.583	-0.218
delta_Rv3594	2.1	2.226
delta_Rv3717	1.258	1.441
delta_Rv3811	0.439	2.28
delta_Rv0954	1.018	1.567
PonA1	0.65	0.925
EccD1_KO	-0.109	0.0
EspI_KO	-0.14	-0.026
PE35_KO	-0.61	0.42
PPE68_KO	0.051	0.637
glycerol2	-0.273	0.205
lignocerate	-1.501	-0.393
oleate	1.161	1.009
phosphatidylcholine	-0.615	0.356
acetate	-2.529	-0.735
glucAc	-2.186	-1.598
Rv0950ko	0.522	0.516
Rv1096ko	0.564	-0.187
Rv3684ko	0.386	0.265
delta_otsA_trehalose	0.4	-0.492