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 Rv1955/higB:

update plot	correlation	link to info on gene
Rv1502/-	(cc=0.4896)	info on Rv1502/-
Rv1518/-	(cc=0.4595)	info on Rv1518/-
Rv0013/trpG	(cc=0.4585)	info on Rv0013/trpG
Rv1561/vapC11	(cc=0.4543)	info on Rv1561/vapC11
Rv2970A/-	(cc=0.4527)	info on Rv2970A/-
Rv0823c/-	(cc=0.4511)	info on Rv0823c/-
Rv2655c/-	(cc=0.4447)	info on Rv2655c/-
Rv0112/gca	(cc=0.4408)	info on Rv0112/gca
Rv0246/-	(cc=0.4364)	info on Rv0246/-
Rv1729c/-	(cc=0.4361)	info on Rv1729c/-

Correlation of Rv1955/higB with Rv0246/-

Normalized LFCs for Rv1955/higB:
(description and provenance of datasets)

	Rv1955/higB	Rv0246/-
Fe_supp_jason_reseq	0.178	-0.013
low_pH_jason_reseq	1.099	0.341
NO_jason_reseq	0.213	-0.373
B6_jason_reseq	0.985	-0.677
MHCII_jason_reseq	-0.776	0.08
Isoniazid02	0.135	-0.694
Rifampicin4	-0.577	-0.761
Ethambutol3	2.984	1.378
Meropenem3	-0.007	0.815
Vancomycin16	-0.08	-0.401
Rv2680_day32	0.567	-0.055
H37Rv_KO_MarP	-0.268	0.23
hypoxia_3wks	-0.55	0.036
hypoxia_6wks	0.775	0.157
glycerol	-0.575	-0.799
cholesterol	-0.782	-1.11
AJ	0.027	-0.629
Bibs02	0.503	-0.381
Bibs02c	0.75	0.133
BL6	0.802	0.88
BL6a	1.218	0.504
BXD01	0.88	0.142
BXD010	0.917	0.601
BXD011	0.963	0.923
BXD03	0.321	0.827
BXD04	0.374	0.555
BXD05	0.854	0.653
BXD06	1.399	0.627
BXD07	1.252	0.788
BXD08	0.759	0.508
BXD09	1.111	0.935
CAST	0.414	0.432
CCcont	0.305	0.217
DS01	0.303	-0.181
DS02	0.455	-0.167
DS04	1.583	-0.254
DS0c	-0.44	1.029
GP01	-0.179	0.571
GP02	1.142	1.072
GP0c	0.358	-0.438
NOD	0.708	0.779
NZO	0.764	-0.066
PWK	1.12	0.033
H37Rv_KO_CtpC	0.9	0.737
H37Rv_KO_CtpD	0.394	0.362
H37Rv_KO_Rv1272	1.515	0.322
H37Rv_KO_SugABC	-1.282	0.296
H37Rv_KO_MbtN	0.488	0.143
Trans05	1.807	0.39
macrophage_unactivated	1.493	0.622
IL1	1.142	0.412
Rapamycin	0.19	-0.046
Tcell	0.678	0.046
GMCSF	1.964	0.187
IFNab	0.683	-0.112
IFNg	0.684	-0.019
IFNg_GMCSF1	0.984	0.201
Rv1432_day32	-1.317	-0.288
Rv1565c_day32	-0.37	-0.286
secA2_input	0.421	-0.224
delta_Rv3594	0.234	-0.393
delta_Rv3717	0.33	-0.339
delta_Rv3811	0.321	0.028
delta_Rv0954	0.464	0.087
PonA1	-0.028	-0.129
EccD1_KO	-0.654	-0.983
EspI_KO	0.519	-0.807
PE35_KO	0.155	-1.374
PPE68_KO	0.403	-1.117
glycerol2	-0.579	0.074
lignocerate	0.424	-0.336
oleate	-0.638	0.306
phosphatidylcholine	-0.336	-0.239
acetate	-0.229	-0.234
glucAc	-0.014	-0.819
Rv0950ko	-0.066	0.88
Rv1096ko	0.0	-0.151
Rv3684ko	-1.136	-0.164
delta_otsA_trehalose	-0.195	-0.383