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 Rv3766/-:

update plot	correlation	link to info on gene
Rv3607c/folB	(cc=0.5235)	info on Rv3607c/folB
Rv3295/-	(cc=0.507)	info on Rv3295/-
Rv0755c/PPE12	(cc=0.4889)	info on Rv0755c/PPE12
Rv1033c/trcR	(cc=0.4611)	info on Rv1033c/trcR
Rv1646/PE17	(cc=0.4608)	info on Rv1646/PE17
Rv2332/mez	(cc=0.4538)	info on Rv2332/mez
Rv3749c/-	(cc=0.4486)	info on Rv3749c/-
Rv1087A/-	(cc=0.4465)	info on Rv1087A/-
Rv1041c/-	(cc=0.438)	info on Rv1041c/-
Rv3018c/PPE46	(cc=0.4327)	info on Rv3018c/PPE46

Correlation of Rv3766/- with Rv2332/mez

Normalized LFCs for Rv3766/-:
(description and provenance of datasets)

	Rv3766/-	Rv2332/mez
Fe_supp_jason_reseq	1.023	0.751
low_pH_jason_reseq	-0.11	-0.437
NO_jason_reseq	-0.042	-0.076
B6_jason_reseq	0.625	0.227
MHCII_jason_reseq	2.035	0.472
Isoniazid02	0.402	1.672
Rifampicin4	0.412	0.181
Ethambutol3	0.185	0.955
Meropenem3	0.056	0.319
Vancomycin16	-0.085	0.424
Rv2680_day32	1.218	0.305
H37Rv_KO_MarP	0.343	0.356
hypoxia_3wks	-0.319	0.363
hypoxia_6wks	-0.345	0.0
glycerol	-0.192	-0.806
cholesterol	0.302	-0.336
AJ	1.839	0.534
Bibs02	0.527	0.246
Bibs02c	-0.317	0.091
BL6	-1.424	-0.165
BL6a	0.716	-0.06
BXD01	0.644	-0.059
BXD010	0.634	-0.243
BXD011	-0.149	0.103
BXD03	0.178	-0.4
BXD04	1.352	0.25
BXD05	0.605	-0.103
BXD06	0.933	-0.041
BXD07	0.301	0.08
BXD08	0.3	-0.276
BXD09	1.073	0.225
CAST	1.126	0.557
CCcont	-1.082	-0.365
DS01	0.57	0.046
DS02	0.0	-0.099
DS04	0.603	0.423
DS0c	0.416	-0.179
GP01	-0.485	-0.279
GP02	-0.672	-0.658
GP0c	-0.891	-1.335
NOD	2.341	0.747
NZO	1.821	0.552
PWK	1.113	0.364
H37Rv_KO_CtpC	0.884	-0.16
H37Rv_KO_CtpD	1.459	0.103
H37Rv_KO_Rv1272	0.578	0.208
H37Rv_KO_SugABC	0.358	0.444
H37Rv_KO_MbtN	-0.789	0.074
Trans05	-0.259	0.874
macrophage_unactivated	-0.988	-0.3
IL1	-0.771	-0.362
Rapamycin	-1.571	-0.752
Tcell	-0.482	-0.609
GMCSF	-0.549	-0.752
IFNab	-1.587	-0.396
IFNg	-1.269	-1.101
IFNg_GMCSF1	-0.496	-0.927
Rv1432_day32	-0.257	0.81
Rv1565c_day32	2.072	0.376
secA2_input	0.067	-0.794
delta_Rv3594	0.439	-0.257
delta_Rv3717	0.409	-0.614
delta_Rv3811	0.115	-0.228
delta_Rv0954	0.992	-0.497
PonA1	-0.485	0.433
EccD1_KO	1.605	0.464
EspI_KO	2.878	0.707
PE35_KO	-2.526	0.368
PPE68_KO	1.945	0.477
glycerol2	1.666	0.67
lignocerate	1.218	0.664
oleate	0.768	0.543
phosphatidylcholine	1.34	0.647
acetate	-0.69	0.221
glucAc	0.467	0.187
Rv0950ko	0.066	-0.555
Rv1096ko	0.317	-0.79
Rv3684ko	0.878	-1.294
delta_otsA_trehalose	0.05	-0.092