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 Rv3026c/-

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

	Rv1143/mcr	Rv3026c/-
Fe_supp_jason_reseq	-0.987	-0.996
low_pH_jason_reseq	-0.694	-0.427
NO_jason_reseq	0.147	-0.116
B6_jason_reseq	0.385	-0.019
MHCII_jason_reseq	0.222	-0.106
Isoniazid02	-0.37	-1.052
Rifampicin4	-0.184	1.107
Ethambutol3	-0.21	-0.834
Meropenem3	-0.401	-1.204
Vancomycin16	-0.247	-0.061
Rv2680_day32	0.5	0.44
H37Rv_KO_MarP	-0.199	0.137
hypoxia_3wks	-0.207	-0.287
hypoxia_6wks	-0.205	-0.422
glycerol	-0.48	0.285
cholesterol	-0.034	-0.383
AJ	0.229	0.218
Bibs02	0.489	0.772
Bibs02c	0.703	0.59
BL6	0.348	-0.317
BL6a	0.211	0.032
BXD01	0.128	-0.297
BXD010	0.263	-0.527
BXD011	-0.15	-0.227
BXD03	0.271	-0.759
BXD04	0.176	0.495
BXD05	0.071	-0.483
BXD06	0.278	-0.257
BXD07	0.147	-0.267
BXD08	0.03	-0.039
BXD09	0.244	-0.071
CAST	-0.589	0.823
CCcont	-0.201	-0.356
DS01	0.561	0.659
DS02	0.6	0.758
DS04	0.375	0.814
DS0c	0.734	0.658
GP01	-0.172	-0.115
GP02	0.891	1.055
GP0c	-0.023	0.243
NOD	0.083	1.033
NZO	0.09	0.538
PWK	0.249	0.264
H37Rv_KO_CtpC	0.0	0.508
H37Rv_KO_CtpD	0.502	0.166
H37Rv_KO_Rv1272	-0.419	-0.624
H37Rv_KO_SugABC	0.464	0.941
H37Rv_KO_MbtN	-0.572	-0.025
Trans05	-0.831	-1.423
macrophage_unactivated	-0.145	-0.508
IL1	0.356	0.047
Rapamycin	0.816	-0.187
Tcell	0.264	0.016
GMCSF	0.343	0.264
IFNab	0.024	-0.505
IFNg	0.735	-0.414
IFNg_GMCSF1	0.311	0.456
Rv1432_day32	0.184	-0.186
Rv1565c_day32	0.22	0.123
secA2_input	0.415	-0.089
delta_Rv3594	0.118	-0.385
delta_Rv3717	0.097	-0.02
delta_Rv3811	0.207	-0.294
delta_Rv0954	0.921	-0.337
PonA1	0.619	0.463
EccD1_KO	0.105	0.332
EspI_KO	0.151	0.382
PE35_KO	0.347	0.391
PPE68_KO	0.102	0.029
glycerol2	0.893	0.626
lignocerate	1.007	0.597
oleate	0.635	0.241
phosphatidylcholine	1.091	0.695
acetate	0.018	0.218
glucAc	0.309	0.176
Rv0950ko	-0.492	0.694
Rv1096ko	0.232	0.811
Rv3684ko	0.383	1.077
delta_otsA_trehalose	-0.413	-2.21