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 Rv0800/pepC:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3004/cfp6	(cc=0.4928)	info on Rv3004/cfp6
Rv3078/hab	(cc=0.4905)	info on Rv3078/hab
Rv2813/-	(cc=0.4813)	info on Rv2813/-
Rv1189/sigI	(cc=0.4769)	info on Rv1189/sigI
Rv2788/sirR	(cc=0.4744)	info on Rv2788/sirR
Rv1657/argR	(cc=0.4718)	info on Rv1657/argR
Rv0095c/-	(cc=0.4591)	info on Rv0095c/-
Rv1136/-	(cc=0.4591)	info on Rv1136/-
Rv0084/hycD	(cc=0.4586)	info on Rv0084/hycD
Rv2499c/-	(cc=0.4337)	info on Rv2499c/-

Correlation of Rv0800/pepC with Rv3004/cfp6

Normalized LFCs for Rv0800/pepC:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0800/pepC	Rv3004/cfp6
Fe_supp_jason_reseq	-0.226	-1.746
low_pH_jason_reseq	-0.647	-2.802
NO_jason_reseq	-0.278	-0.215
B6_jason_reseq	-0.668	1.311
MHCII_jason_reseq	-0.017	-0.604
Isoniazid02	0.793	-0.308
Rifampicin4	-0.054	0.23
Ethambutol3	-0.148	-0.711
Meropenem3	-0.198	-0.624
Vancomycin16	0.101	0.114
Rv2680_day32	-1.292	0.131
H37Rv_KO_MarP	0.652	-0.845
hypoxia_3wks	-0.706	-0.231
hypoxia_6wks	-0.04	0.541
glycerol	1.044	0.471
cholesterol	0.375	-0.156
AJ	0.803	0.834
Bibs02	0.241	1.317
Bibs02c	-0.721	-0.406
BL6	-0.537	-0.49
BL6a	-0.782	0.888
BXD01	-0.111	0.352
BXD010	0.101	-0.728
BXD011	-0.125	0.491
BXD03	-0.3	0.085
BXD04	0.675	0.395
BXD05	-0.032	0.43
BXD06	0.0	-0.418
BXD07	0.079	0.0
BXD08	0.217	0.013
BXD09	0.033	0.938
CAST	0.105	0.991
CCcont	0.492	0.0
DS01	0.311	1.711
DS02	-0.611	1.418
DS04	0.336	-0.271
DS0c	0.501	1.738
GP01	-0.637	-0.309
GP02	0.646	-1.639
GP0c	-0.679	-1.209
NOD	0.177	0.142
NZO	0.069	2.068
PWK	1.202	-0.404
H37Rv_KO_CtpC	-0.407	-3.53
H37Rv_KO_CtpD	-0.337	-2.851
H37Rv_KO_Rv1272	-1.555	-0.124
H37Rv_KO_SugABC	-0.309	-2.014
H37Rv_KO_MbtN	0.208	-0.417
Trans05	-1.79	-0.807
macrophage_unactivated	-0.499	0.492
IL1	0.311	0.039
Rapamycin	-0.258	0.813
Tcell	0.505	2.095
GMCSF	0.312	0.29
IFNab	-0.432	0.366
IFNg	0.347	2.245
IFNg_GMCSF1	-0.544	0.233
Rv1432_day32	0.01	-1.079
Rv1565c_day32	0.196	-1.229
secA2_input	-0.67	-3.611
delta_Rv3594	0.828	1.869
delta_Rv3717	0.303	0.405
delta_Rv3811	1.255	1.096
delta_Rv0954	0.943	1.613
PonA1	1.541	2.748
EccD1_KO	1.105	3.983
EspI_KO	1.6	4.195
PE35_KO	1.088	3.209
PPE68_KO	1.251	2.003
glycerol2	0.245	0.834
lignocerate	0.805	0.952
oleate	-0.023	0.948
phosphatidylcholine	0.499	0.466
acetate	1.461	0.457
glucAc	0.304	0.415
Rv0950ko	-0.458	1.061
Rv1096ko	0.582	2.147
Rv3684ko	-0.35	0.567
delta_otsA_trehalose	-0.199	-0.837