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 Rv1260/-:

update plot	correlation	link to info on gene
Rv0755c/PPE12	(cc=0.602)	info on Rv0755c/PPE12
Rv1646/PE17	(cc=0.5383)	info on Rv1646/PE17
Rv2808/-	(cc=0.5176)	info on Rv2808/-
Rv0669c/-	(cc=0.5018)	info on Rv0669c/-
Rv3784/-	(cc=0.486)	info on Rv3784/-
Rv1087/PE_PGRS21	(cc=0.4856)	info on Rv1087/PE_PGRS21
Rv1378c/-	(cc=0.4856)	info on Rv1378c/-
Rv3697c/vapC48	(cc=0.4849)	info on Rv3697c/vapC48
Rv0739/-	(cc=0.4837)	info on Rv0739/-
Rv1818c/PE_PGRS33	(cc=0.4818)	info on Rv1818c/PE_PGRS33

Correlation of Rv1260/- with Rv3697c/vapC48

Normalized LFCs for Rv1260/-:
(description and provenance of datasets)

	Rv1260/-	Rv3697c/vapC48
Fe_supp_jason_reseq	-1.051	1.004
low_pH_jason_reseq	-0.555	0.248
NO_jason_reseq	-0.743	0.257
B6_jason_reseq	0.641	0.432
MHCII_jason_reseq	0.565	0.625
Isoniazid02	0.247	0.127
Rifampicin4	-0.141	0.986
Ethambutol3	-0.032	0.259
Meropenem3	0.0	0.623
Vancomycin16	-0.138	0.849
Rv2680_day32	-0.597	-0.608
H37Rv_KO_MarP	-0.214	0.141
hypoxia_3wks	0.0	-0.187
hypoxia_6wks	0.148	0.599
glycerol	0.607	-1.059
cholesterol	0.847	-0.18
AJ	0.225	1.141
Bibs02	0.758	0.148
Bibs02c	0.674	1.023
BL6	-1.235	0.43
BL6a	0.165	0.946
BXD01	0.074	1.006
BXD010	0.717	0.63
BXD011	0.437	0.497
BXD03	-0.573	0.265
BXD04	-0.194	0.173
BXD05	-0.08	0.037
BXD06	-0.209	0.352
BXD07	-0.082	0.319
BXD08	-0.277	0.723
BXD09	-0.062	0.615
CAST	0.484	0.929
CCcont	-0.209	0.578
DS01	0.785	0.7
DS02	0.857	1.311
DS04	0.475	0.926
DS0c	0.767	1.073
GP01	-1.091	0.32
GP02	0.286	1.123
GP0c	-0.669	0.655
NOD	1.258	1.15
NZO	-0.525	0.351
PWK	0.674	1.223
H37Rv_KO_CtpC	0.221	1.453
H37Rv_KO_CtpD	0.608	0.915
H37Rv_KO_Rv1272	0.439	-0.06
H37Rv_KO_SugABC	-0.122	1.48
H37Rv_KO_MbtN	0.611	0.337
Trans05	-0.161	1.053
macrophage_unactivated	-0.136	-0.675
IL1	-1.317	-1.053
Rapamycin	-1.022	-1.789
Tcell	0.202	-0.534
GMCSF	-1.172	-1.595
IFNab	-0.692	-0.98
IFNg	-0.484	-0.676
IFNg_GMCSF1	-0.962	-1.254
Rv1432_day32	-0.012	-1.395
Rv1565c_day32	0.066	0.684
secA2_input	-1.687	-0.368
delta_Rv3594	0.0	0.021
delta_Rv3717	-0.029	-0.279
delta_Rv3811	0.034	-0.042
delta_Rv0954	-0.992	-0.239
PonA1	-0.226	-0.059
EccD1_KO	-0.414	-0.576
EspI_KO	0.328	0.02
PE35_KO	0.335	-0.257
PPE68_KO	0.442	-0.307
glycerol2	0.708	0.743
lignocerate	0.547	1.221
oleate	0.489	0.95
phosphatidylcholine	1.273	1.308
acetate	-0.033	0.329
glucAc	0.02	0.432
Rv0950ko	0.112	1.077
Rv1096ko	0.326	0.033
Rv3684ko	0.0	0.701
delta_otsA_trehalose	-0.654	-0.143