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 Rv3180c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0316/-	(cc=0.5357)	info on Rv0316/-
Rv0571c/-	(cc=0.5299)	info on Rv0571c/-
Rv3480c/-	(cc=0.5251)	info on Rv3480c/-
Rv0850/-	(cc=0.5243)	info on Rv0850/-
Rv3196/-	(cc=0.5063)	info on Rv3196/-
Rv3395c/-	(cc=0.5061)	info on Rv3395c/-
Rv1140/-	(cc=0.5059)	info on Rv1140/-
Rv1351/-	(cc=0.5016)	info on Rv1351/-
Rv0376c/-	(cc=0.497)	info on Rv0376c/-
Rv1734c/-	(cc=0.4932)	info on Rv1734c/-

Correlation of Rv3180c/- with Rv0316/-

Normalized LFCs for Rv3180c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3180c/-	Rv0316/-
Fe_supp_jason_reseq	-1.722	-1.37
low_pH_jason_reseq	-0.51	-0.494
NO_jason_reseq	0.572	0.323
B6_jason_reseq	-0.272	-0.788
MHCII_jason_reseq	1.065	-0.414
Isoniazid02	0.908	0.633
Rifampicin4	1.134	1.178
Ethambutol3	0.601	0.64
Meropenem3	0.962	0.478
Vancomycin16	0.191	0.584
Rv2680_day32	0.503	0.061
H37Rv_KO_MarP	0.49	0.214
hypoxia_3wks	-0.335	-0.606
hypoxia_6wks	-0.395	-1.376
glycerol	0.562	-0.66
cholesterol	-0.602	-0.105
AJ	-0.536	-0.294
Bibs02	0.429	1.318
Bibs02c	0.682	0.708
BL6	-0.55	-1.256
BL6a	-0.08	-0.954
BXD01	-0.097	-1.129
BXD010	-1.343	-1.794
BXD011	-0.576	-1.351
BXD03	-2.341	-0.896
BXD04	-1.41	-1.265
BXD05	-0.693	-1.351
BXD06	-1.69	-1.551
BXD07	-0.696	-1.39
BXD08	0.588	-1.288
BXD09	-0.312	-1.219
CAST	-0.355	0.23
CCcont	-0.189	-0.951
DS01	0.878	-0.067
DS02	1.289	1.007
DS04	1.244	0.586
DS0c	1.648	-0.751
GP01	-0.483	0.416
GP02	-1.123	0.104
GP0c	-0.739	-0.305
NOD	-1.645	0.714
NZO	-0.461	-0.468
PWK	-1.199	-0.202
H37Rv_KO_CtpC	-1.931	-0.856
H37Rv_KO_CtpD	0.618	0.752
H37Rv_KO_Rv1272	-1.01	-2.517
H37Rv_KO_SugABC	-1.526	-0.738
H37Rv_KO_MbtN	-1.828	0.256
Trans05	0.091	-0.531
macrophage_unactivated	0.174	-0.754
IL1	-3.135	-1.554
Rapamycin	0.169	-1.203
Tcell	-0.45	-0.779
GMCSF	-3.72	-1.436
IFNab	-3.196	-1.025
IFNg	-1.227	-0.639
IFNg_GMCSF1	-1.056	-0.958
Rv1432_day32	0.0	1.275
Rv1565c_day32	0.927	0.063
secA2_input	-0.473	0.261
delta_Rv3594	0.561	0.684
delta_Rv3717	0.0	-0.305
delta_Rv3811	0.981	0.471
delta_Rv0954	1.078	1.067
PonA1	0.515	0.892
EccD1_KO	-0.401	-0.365
EspI_KO	-0.69	-0.285
PE35_KO	-1.706	0.093
PPE68_KO	-1.705	-0.07
glycerol2	0.074	0.977
lignocerate	-0.09	0.528
oleate	0.373	0.21
phosphatidylcholine	0.368	0.909
acetate	0.256	1.238
glucAc	0.392	0.972
Rv0950ko	0.479	0.778
Rv1096ko	1.668	0.175
Rv3684ko	0.468	0.239
delta_otsA_trehalose	-0.915	-1.132