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 Rv0446c/-:

update plot	correlation	link to info on gene
Rv3636/-	(cc=0.474)	info on Rv3636/-
Rv2857c/-	(cc=0.4455)	info on Rv2857c/-
Rv1417/-	(cc=0.4388)	info on Rv1417/-
Rv2218/lipA	(cc=0.4315)	info on Rv2218/lipA
Rv2234/ptpA	(cc=0.4282)	info on Rv2234/ptpA
Rv1496/-	(cc=0.4016)	info on Rv1496/-
Rv1269c/-	(cc=0.3973)	info on Rv1269c/-
Rv2877c/-	(cc=0.3924)	info on Rv2877c/-
Rv3379c/dxs2	(cc=0.3904)	info on Rv3379c/dxs2
Rv0575c/-	(cc=0.387)	info on Rv0575c/-

Correlation of Rv0446c/- with Rv3379c/dxs2

Normalized LFCs for Rv0446c/-:
(description and provenance of datasets)

	Rv0446c/-	Rv3379c/dxs2
Fe_supp_jason_reseq	1.051	0.745
low_pH_jason_reseq	0.186	0.47
NO_jason_reseq	-0.142	0.081
B6_jason_reseq	-0.178	-0.107
MHCII_jason_reseq	0.678	-0.462
Isoniazid02	-0.198	-0.374
Rifampicin4	-0.1	0.233
Ethambutol3	0.202	1.671
Meropenem3	0.075	0.307
Vancomycin16	0.072	0.04
Rv2680_day32	-0.628	-0.452
H37Rv_KO_MarP	0.392	1.095
hypoxia_3wks	0.339	0.415
hypoxia_6wks	-0.169	-0.205
glycerol	-0.465	0.492
cholesterol	-0.203	-0.315
AJ	-0.183	0.659
Bibs02	-0.673	-0.201
Bibs02c	0.023	-0.112
BL6	0.684	0.11
BL6a	-0.168	0.356
BXD01	-0.014	0.396
BXD010	-0.139	0.158
BXD011	-0.234	0.448
BXD03	-0.284	0.597
BXD04	0.585	0.912
BXD05	0.541	0.767
BXD06	-0.029	0.53
BXD07	0.171	0.513
BXD08	0.036	0.516
BXD09	0.233	0.467
CAST	-0.224	0.414
CCcont	-0.227	0.184
DS01	-0.344	0.318
DS02	-1.185	0.618
DS04	-0.5	-0.55
DS0c	-0.385	0.292
GP01	-0.175	0.328
GP02	0.672	0.715
GP0c	-0.119	0.408
NOD	-1.103	0.404
NZO	0.022	0.15
PWK	0.053	0.374
H37Rv_KO_CtpC	-0.755	0.122
H37Rv_KO_CtpD	0.958	0.36
H37Rv_KO_Rv1272	-0.103	0.804
H37Rv_KO_SugABC	0.613	0.845
H37Rv_KO_MbtN	0.276	0.903
Trans05	0.021	0.318
macrophage_unactivated	0.224	0.35
IL1	0.021	0.501
Rapamycin	0.322	0.853
Tcell	0.094	0.124
GMCSF	0.349	0.354
IFNab	0.378	0.405
IFNg	1.09	1.04
IFNg_GMCSF1	0.135	0.839
Rv1432_day32	-0.498	-0.043
Rv1565c_day32	0.374	0.269
secA2_input	-0.518	0.495
delta_Rv3594	-1.002	-0.153
delta_Rv3717	-0.638	-0.624
delta_Rv3811	-0.836	-1.002
delta_Rv0954	0.631	-0.545
PonA1	-0.384	-0.284
EccD1_KO	-0.191	-0.214
EspI_KO	0.248	0.0
PE35_KO	-0.073	-0.391
PPE68_KO	-0.582	0.16
glycerol2	-0.011	0.481
lignocerate	0.253	-0.347
oleate	-0.101	-0.295
phosphatidylcholine	-0.066	0.102
acetate	-0.482	-0.304
glucAc	-0.339	-0.714
Rv0950ko	0.434	-0.145
Rv1096ko	0.694	0.314
Rv3684ko	0.442	0.0
delta_otsA_trehalose	-0.645	-0.749