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 Rv3656c/-:

update plot	correlation	link to info on gene
Rv1604/impA	(cc=0.5376)	info on Rv1604/impA
Rv1583c/-	(cc=0.493)	info on Rv1583c/-
Rv3819/-	(cc=0.4831)	info on Rv3819/-
Rv2253/-	(cc=0.4715)	info on Rv2253/-
Rv2689c/-	(cc=0.4707)	info on Rv2689c/-
Rv3470c/ilvB2	(cc=0.4619)	info on Rv3470c/ilvB2
Rv0698/-	(cc=0.4599)	info on Rv0698/-
Rv2665/-	(cc=0.4531)	info on Rv2665/-
Rv1366/-	(cc=0.4479)	info on Rv1366/-
Rv3904c/esxE	(cc=0.4475)	info on Rv3904c/esxE

Correlation of Rv3656c/- with Rv2689c/-

Normalized LFCs for Rv3656c/-:
(description and provenance of datasets)

	Rv3656c/-	Rv2689c/-
Fe_supp_jason_reseq	-1.424	-1.129
low_pH_jason_reseq	-0.294	-1.012
NO_jason_reseq	-1.179	0.559
B6_jason_reseq	-3.075	-0.512
MHCII_jason_reseq	-0.951	-1.4
Isoniazid02	-0.317	-1.215
Rifampicin4	0.374	0.357
Ethambutol3	-0.128	0.664
Meropenem3	-0.182	-0.204
Vancomycin16	0.26	0.263
Rv2680_day32	-0.461	-0.353
H37Rv_KO_MarP	0.099	-0.014
hypoxia_3wks	-0.443	-0.59
hypoxia_6wks	-1.006	-0.019
glycerol	-0.094	0.69
cholesterol	-0.102	0.132
AJ	0.684	0.274
Bibs02	-0.416	-0.154
Bibs02c	-0.252	-0.811
BL6	1.337	0.373
BL6a	0.0	-0.151
BXD01	1.029	0.596
BXD010	0.581	0.713
BXD011	0.736	1.253
BXD03	0.445	0.133
BXD04	-0.117	-0.028
BXD05	0.225	0.696
BXD06	0.0	0.54
BXD07	1.109	0.818
BXD08	0.392	0.427
BXD09	0.18	0.525
CAST	0.976	0.662
CCcont	1.844	0.308
DS01	0.441	-0.335
DS02	-0.101	-0.049
DS04	0.991	0.978
DS0c	-2.696	-1.273
GP01	0.448	0.084
GP02	-0.316	0.453
GP0c	0.531	0.366
NOD	-0.387	0.236
NZO	4.004	0.756
PWK	0.612	1.159
H37Rv_KO_CtpC	0.072	0.856
H37Rv_KO_CtpD	1.582	-0.387
H37Rv_KO_Rv1272	-0.535	0.203
H37Rv_KO_SugABC	-0.763	0.59
H37Rv_KO_MbtN	0.046	-0.164
Trans05	-0.539	0.084
macrophage_unactivated	0.369	0.104
IL1	-1.172	-0.021
Rapamycin	-1.05	-0.424
Tcell	-0.342	0.371
GMCSF	-0.517	-0.726
IFNab	-0.662	-0.245
IFNg	-0.649	-0.735
IFNg_GMCSF1	-1.411	-0.669
Rv1432_day32	0.343	0.188
Rv1565c_day32	0.377	-0.194
secA2_input	-0.421	0.626
delta_Rv3594	-1.473	-0.171
delta_Rv3717	-1.013	0.518
delta_Rv3811	-0.207	0.018
delta_Rv0954	-0.916	-0.229
PonA1	0.166	-0.774
EccD1_KO	-0.638	0.441
EspI_KO	0.034	0.844
PE35_KO	0.172	0.233
PPE68_KO	0.618	0.464
glycerol2	0.465	0.593
lignocerate	1.137	0.928
oleate	-0.167	0.373
phosphatidylcholine	0.604	0.723
acetate	0.509	1.082
glucAc	2.591	0.601
Rv0950ko	0.458	-0.16
Rv1096ko	0.805	-0.712
Rv3684ko	0.616	0.783
delta_otsA_trehalose	0.629	2.741