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 Rv3633/-

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

	Rv1143/mcr	Rv3633/-
Fe_supp_jason_reseq	-0.987	0.147
low_pH_jason_reseq	-0.694	-0.142
NO_jason_reseq	0.147	0.751
B6_jason_reseq	0.385	0.304
MHCII_jason_reseq	0.222	0.688
Isoniazid02	-0.37	-0.214
Rifampicin4	-0.184	-0.349
Ethambutol3	-0.21	-0.04
Meropenem3	-0.401	-0.42
Vancomycin16	-0.247	-0.271
Rv2680_day32	0.5	1.337
H37Rv_KO_MarP	-0.199	0.188
hypoxia_3wks	-0.207	-0.156
hypoxia_6wks	-0.205	-0.522
glycerol	-0.48	-0.126
cholesterol	-0.034	-0.01
AJ	0.229	-0.459
Bibs02	0.489	0.637
Bibs02c	0.703	0.923
BL6	0.348	0.24
BL6a	0.211	0.367
BXD01	0.128	0.396
BXD010	0.263	0.513
BXD011	-0.15	0.611
BXD03	0.271	0.427
BXD04	0.176	1.07
BXD05	0.071	0.573
BXD06	0.278	0.508
BXD07	0.147	0.041
BXD08	0.03	0.613
BXD09	0.244	0.313
CAST	-0.589	-0.521
CCcont	-0.201	0.088
DS01	0.561	0.679
DS02	0.6	0.613
DS04	0.375	0.93
DS0c	0.734	0.647
GP01	-0.172	-0.242
GP02	0.891	0.367
GP0c	-0.023	-0.685
NOD	0.083	-0.325
NZO	0.09	-0.205
PWK	0.249	-0.234
H37Rv_KO_CtpC	0.0	0.352
H37Rv_KO_CtpD	0.502	0.643
H37Rv_KO_Rv1272	-0.419	-0.217
H37Rv_KO_SugABC	0.464	0.494
H37Rv_KO_MbtN	-0.572	-0.334
Trans05	-0.831	-0.397
macrophage_unactivated	-0.145	0.032
IL1	0.356	0.122
Rapamycin	0.816	0.31
Tcell	0.264	0.782
GMCSF	0.343	0.367
IFNab	0.024	0.45
IFNg	0.735	0.11
IFNg_GMCSF1	0.311	0.031
Rv1432_day32	0.184	-0.061
Rv1565c_day32	0.22	-1.797
secA2_input	0.415	-0.332
delta_Rv3594	0.118	0.095
delta_Rv3717	0.097	0.059
delta_Rv3811	0.207	-0.024
delta_Rv0954	0.921	0.284
PonA1	0.619	0.919
EccD1_KO	0.105	0.112
EspI_KO	0.151	0.684
PE35_KO	0.347	0.195
PPE68_KO	0.102	0.451
glycerol2	0.893	0.968
lignocerate	1.007	0.655
oleate	0.635	-0.221
phosphatidylcholine	1.091	0.676
acetate	0.018	0.043
glucAc	0.309	0.202
Rv0950ko	-0.492	-0.624
Rv1096ko	0.232	0.151
Rv3684ko	0.383	-0.344
delta_otsA_trehalose	-0.413	0.413