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 Rv3707c/-:

update plot	correlation	link to info on gene
Rv3450c/eccB4	(cc=0.5301)	info on Rv3450c/eccB4
Rv3911/sigM	(cc=0.5154)	info on Rv3911/sigM
Rv2748c/ftsK	(cc=0.5139)	info on Rv2748c/ftsK
Rv3661/-	(cc=0.4874)	info on Rv3661/-
Rv0536/galE3	(cc=0.4759)	info on Rv0536/galE3
Rv0597c/-	(cc=0.4539)	info on Rv0597c/-
Rv1859/modC	(cc=0.4538)	info on Rv1859/modC
Rv0493c/-	(cc=0.4434)	info on Rv0493c/-
Rv2016/-	(cc=0.4387)	info on Rv2016/-
Rv0701/rplC	(cc=0.4372)	info on Rv0701/rplC

Correlation of Rv3707c/- with Rv0493c/-

Normalized LFCs for Rv3707c/-:
(description and provenance of datasets)

	Rv3707c/-	Rv0493c/-
Fe_supp_jason_reseq	0.796	-0.164
low_pH_jason_reseq	-0.765	-0.937
NO_jason_reseq	-0.391	-0.501
B6_jason_reseq	0.398	0.031
MHCII_jason_reseq	0.661	0.074
Isoniazid02	0.406	0.106
Rifampicin4	1.199	-0.352
Ethambutol3	1.063	0.721
Meropenem3	0.189	0.313
Vancomycin16	0.462	-0.135
Rv2680_day32	-0.097	-0.758
H37Rv_KO_MarP	0.254	0.677
hypoxia_3wks	-0.159	0.0
hypoxia_6wks	0.428	0.716
glycerol	-0.044	-0.705
cholesterol	-0.263	-0.449
AJ	-0.471	0.429
Bibs02	0.099	0.212
Bibs02c	-0.027	0.303
BL6	-1.348	0.012
BL6a	-0.242	0.009
BXD01	-1.024	-0.944
BXD010	0.714	0.104
BXD011	-0.465	-0.272
BXD03	-0.494	-0.113
BXD04	-0.673	-0.473
BXD05	-0.315	-0.359
BXD06	-0.624	-0.423
BXD07	-0.073	-0.647
BXD08	-0.543	-0.104
BXD09	-0.685	-0.124
CAST	-0.641	-0.088
CCcont	-0.823	-0.591
DS01	0.953	0.455
DS02	0.477	0.436
DS04	0.271	0.208
DS0c	0.825	0.55
GP01	0.978	-0.228
GP02	1.421	-0.253
GP0c	0.591	0.188
NOD	0.238	-0.799
NZO	-0.5	0.065
PWK	-0.139	0.064
H37Rv_KO_CtpC	-0.884	-0.783
H37Rv_KO_CtpD	-0.907	0.293
H37Rv_KO_Rv1272	0.423	-0.669
H37Rv_KO_SugABC	0.217	-0.515
H37Rv_KO_MbtN	-1.111	-0.806
Trans05	-1.377	-0.71
macrophage_unactivated	-0.347	0.136
IL1	0.418	0.202
Rapamycin	0.064	0.577
Tcell	-0.238	0.114
GMCSF	0.618	0.393
IFNab	0.635	0.051
IFNg	0.577	0.604
IFNg_GMCSF1	0.66	1.282
Rv1432_day32	-0.133	0.184
Rv1565c_day32	-0.201	0.118
secA2_input	1.443	0.858
delta_Rv3594	-0.046	0.54
delta_Rv3717	0.0	0.342
delta_Rv3811	0.546	0.404
delta_Rv0954	0.092	0.444
PonA1	0.568	-0.233
EccD1_KO	-0.845	0.332
EspI_KO	-1.121	-0.288
PE35_KO	-1.33	-0.248
PPE68_KO	-0.787	-0.349
glycerol2	-0.034	0.115
lignocerate	0.195	0.569
oleate	-0.418	-0.922
phosphatidylcholine	0.083	0.115
acetate	0.266	0.203
glucAc	0.073	0.385
Rv0950ko	0.081	0.181
Rv1096ko	0.081	1.218
Rv3684ko	-0.046	0.115
delta_otsA_trehalose	-0.078	0.533