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 Rv1143/mcr:

update plot	correlation	link to info on gene
Rv3026c/-	(cc=0.4826)	info on Rv3026c/-
Rv3633/-	(cc=0.4811)	info on Rv3633/-
Rv0921/-	(cc=0.4757)	info on Rv0921/-
Rv0517/-	(cc=0.4594)	info on Rv0517/-
Rv0843/-	(cc=0.4519)	info on Rv0843/-
Rv0232/-	(cc=0.4347)	info on Rv0232/-
Rv1812c/-	(cc=0.4336)	info on Rv1812c/-
Rv3086/adhD	(cc=0.4306)	info on Rv3086/adhD
Rv0730/-	(cc=0.4303)	info on Rv0730/-
Rv1788/PE18	(cc=0.4274)	info on Rv1788/PE18

Correlation of Rv1143/mcr with Rv0517/-

Normalized LFCs for Rv1143/mcr:
(description and provenance of datasets)

	Rv1143/mcr	Rv0517/-
Fe_supp_jason_reseq	-0.987	-0.564
low_pH_jason_reseq	-0.694	-1.084
NO_jason_reseq	0.147	-0.263
B6_jason_reseq	0.385	-0.347
MHCII_jason_reseq	0.222	0.223
Isoniazid02	-0.37	-0.749
Rifampicin4	-0.184	-0.577
Ethambutol3	-0.21	-1.876
Meropenem3	-0.401	-0.561
Vancomycin16	-0.247	-0.623
Rv2680_day32	0.5	0.452
H37Rv_KO_MarP	-0.199	0.279
hypoxia_3wks	-0.207	0.494
hypoxia_6wks	-0.205	0.576
glycerol	-0.48	-0.511
cholesterol	-0.034	0.212
AJ	0.229	-0.054
Bibs02	0.489	0.021
Bibs02c	0.703	0.277
BL6	0.348	0.119
BL6a	0.211	-0.014
BXD01	0.128	-0.317
BXD010	0.263	-0.25
BXD011	-0.15	-0.329
BXD03	0.271	0.154
BXD04	0.176	-0.43
BXD05	0.071	-0.165
BXD06	0.278	-0.443
BXD07	0.147	-0.403
BXD08	0.03	-0.429
BXD09	0.244	-0.213
CAST	-0.589	-0.692
CCcont	-0.201	-0.554
DS01	0.561	0.209
DS02	0.6	0.044
DS04	0.375	0.101
DS0c	0.734	-0.016
GP01	-0.172	-0.922
GP02	0.891	-1.025
GP0c	-0.023	-0.69
NOD	0.083	-0.275
NZO	0.09	-0.34
PWK	0.249	-0.827
H37Rv_KO_CtpC	0.0	-0.345
H37Rv_KO_CtpD	0.502	-0.219
H37Rv_KO_Rv1272	-0.419	0.38
H37Rv_KO_SugABC	0.464	0.478
H37Rv_KO_MbtN	-0.572	-0.66
Trans05	-0.831	-0.645
macrophage_unactivated	-0.145	0.161
IL1	0.356	0.131
Rapamycin	0.816	0.694
Tcell	0.264	-0.049
GMCSF	0.343	0.04
IFNab	0.024	0.565
IFNg	0.735	0.099
IFNg_GMCSF1	0.311	0.069
Rv1432_day32	0.184	0.984
Rv1565c_day32	0.22	-0.553
secA2_input	0.415	0.283
delta_Rv3594	0.118	0.106
delta_Rv3717	0.097	-0.145
delta_Rv3811	0.207	-0.178
delta_Rv0954	0.921	0.128
PonA1	0.619	0.225
EccD1_KO	0.105	0.539
EspI_KO	0.151	-0.128
PE35_KO	0.347	-0.105
PPE68_KO	0.102	-0.355
glycerol2	0.893	0.163
lignocerate	1.007	0.364
oleate	0.635	-0.018
phosphatidylcholine	1.091	0.543
acetate	0.018	-0.389
glucAc	0.309	0.112
Rv0950ko	-0.492	-0.41
Rv1096ko	0.232	-0.537
Rv3684ko	0.383	-0.082
delta_otsA_trehalose	-0.413	-0.331