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 Rv1646/PE17

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

	Rv3766/-	Rv1646/PE17
Fe_supp_jason_reseq	1.023	0.358
low_pH_jason_reseq	-0.11	-0.348
NO_jason_reseq	-0.042	0.181
B6_jason_reseq	0.625	0.787
MHCII_jason_reseq	2.035	0.025
Isoniazid02	0.402	0.661
Rifampicin4	0.412	0.439
Ethambutol3	0.185	0.48
Meropenem3	0.056	-0.279
Vancomycin16	-0.085	-0.167
Rv2680_day32	1.218	0.621
H37Rv_KO_MarP	0.343	-0.195
hypoxia_3wks	-0.319	0.267
hypoxia_6wks	-0.345	-0.654
glycerol	-0.192	0.329
cholesterol	0.302	0.325
AJ	1.839	0.948
Bibs02	0.527	0.13
Bibs02c	-0.317	0.606
BL6	-1.424	-0.783
BL6a	0.716	0.445
BXD01	0.644	0.031
BXD010	0.634	-0.225
BXD011	-0.149	-0.667
BXD03	0.178	-0.788
BXD04	1.352	0.394
BXD05	0.605	-0.054
BXD06	0.933	-0.508
BXD07	0.301	-0.498
BXD08	0.3	0.082
BXD09	1.073	-0.457
CAST	1.126	1.018
CCcont	-1.082	-0.333
DS01	0.57	0.631
DS02	0.0	0.597
DS04	0.603	0.396
DS0c	0.416	1.196
GP01	-0.485	0.043
GP02	-0.672	0.312
GP0c	-0.891	0.025
NOD	2.341	0.765
NZO	1.821	0.525
PWK	1.113	0.479
H37Rv_KO_CtpC	0.884	0.071
H37Rv_KO_CtpD	1.459	-0.623
H37Rv_KO_Rv1272	0.578	-0.306
H37Rv_KO_SugABC	0.358	-0.135
H37Rv_KO_MbtN	-0.789	0.468
Trans05	-0.259	-0.072
macrophage_unactivated	-0.988	-0.729
IL1	-0.771	-1.103
Rapamycin	-1.571	-1.264
Tcell	-0.482	-0.026
GMCSF	-0.549	-0.855
IFNab	-1.587	-1.403
IFNg	-1.269	-1.213
IFNg_GMCSF1	-0.496	-0.698
Rv1432_day32	-0.257	-0.339
Rv1565c_day32	2.072	-0.488
secA2_input	0.067	-0.067
delta_Rv3594	0.439	0.219
delta_Rv3717	0.409	-0.447
delta_Rv3811	0.115	0.089
delta_Rv0954	0.992	-0.167
PonA1	-0.485	0.194
EccD1_KO	1.605	0.49
EspI_KO	2.878	0.351
PE35_KO	-2.526	0.397
PPE68_KO	1.945	0.873
glycerol2	1.666	0.573
lignocerate	1.218	0.32
oleate	0.768	0.763
phosphatidylcholine	1.34	0.882
acetate	-0.69	-0.253
glucAc	0.467	-0.363
Rv0950ko	0.066	0.606
Rv1096ko	0.317	-0.817
Rv3684ko	0.878	-0.321
delta_otsA_trehalose	0.05	-1.123