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 Rv3517/-:

update plot	correlation	link to info on gene
Rv3694c/-	(cc=0.4981)	info on Rv3694c/-
Rv3689/-	(cc=0.4812)	info on Rv3689/-
Rv3796/-	(cc=0.4794)	info on Rv3796/-
Rv2253/-	(cc=0.4682)	info on Rv2253/-
Rv0831c/-	(cc=0.463)	info on Rv0831c/-
Rv3744/nmtR	(cc=0.4522)	info on Rv3744/nmtR
Rv3695/-	(cc=0.4453)	info on Rv3695/-
Rv1585c/-	(cc=0.4422)	info on Rv1585c/-
Rv3142c/-	(cc=0.4388)	info on Rv3142c/-
Rv3378c/-	(cc=0.4266)	info on Rv3378c/-

Correlation of Rv3517/- with Rv3694c/-

Normalized LFCs for Rv3517/-:
(description and provenance of datasets)

	Rv3517/-	Rv3694c/-
Fe_supp_jason_reseq	0.3	0.032
low_pH_jason_reseq	-1.491	-2.168
NO_jason_reseq	-0.541	-0.948
B6_jason_reseq	-0.856	-1.304
MHCII_jason_reseq	-0.266	-2.269
Isoniazid02	-0.419	-0.37
Rifampicin4	0.65	-0.999
Ethambutol3	0.514	-0.179
Meropenem3	1.004	-0.115
Vancomycin16	-0.297	0.297
Rv2680_day32	-0.576	0.339
H37Rv_KO_MarP	0.016	-0.586
hypoxia_3wks	-0.427	0.275
hypoxia_6wks	-0.397	0.708
glycerol	-0.793	-1.539
cholesterol	0.252	-0.233
AJ	1.592	1.23
Bibs02	0.736	-0.691
Bibs02c	0.202	0.152
BL6	0.556	1.824
BL6a	-0.076	0.864
BXD01	0.731	1.257
BXD010	0.671	0.693
BXD011	0.3	1.576
BXD03	0.891	1.065
BXD04	0.279	0.896
BXD05	0.234	0.911
BXD06	0.218	1.028
BXD07	0.084	1.463
BXD08	1.061	1.264
BXD09	0.589	0.909
CAST	0.14	-0.132
CCcont	0.639	1.589
DS01	0.869	-0.089
DS02	0.354	-0.399
DS04	1.117	0.748
DS0c	0.08	-1.131
GP01	0.805	0.795
GP02	-0.124	0.074
GP0c	1.021	0.614
NOD	1.778	-0.973
NZO	0.803	0.525
PWK	1.833	2.1
H37Rv_KO_CtpC	1.432	1.972
H37Rv_KO_CtpD	0.683	0.135
H37Rv_KO_Rv1272	1.625	2.263
H37Rv_KO_SugABC	0.39	1.67
H37Rv_KO_MbtN	-0.153	0.932
Trans05	1.08	2.032
macrophage_unactivated	0.698	0.505
IL1	0.036	0.362
Rapamycin	-0.629	-0.408
Tcell	0.948	0.802
GMCSF	0.063	0.65
IFNab	0.245	0.992
IFNg	-0.265	0.965
IFNg_GMCSF1	0.327	0.735
Rv1432_day32	-0.394	0.424
Rv1565c_day32	-0.357	-0.937
secA2_input	0.332	-0.562
delta_Rv3594	-0.408	-1.023
delta_Rv3717	-0.258	-0.351
delta_Rv3811	0.016	0.416
delta_Rv0954	-0.362	-0.39
PonA1	1.154	-0.706
EccD1_KO	0.766	-0.625
EspI_KO	-0.439	0.088
PE35_KO	0.055	0.149
PPE68_KO	0.358	0.131
glycerol2	0.611	0.045
lignocerate	0.746	-0.06
oleate	0.956	0.836
phosphatidylcholine	0.728	-0.19
acetate	0.12	0.464
glucAc	0.223	0.288
Rv0950ko	0.036	-0.244
Rv1096ko	1.616	0.558
Rv3684ko	1.33	0.91
delta_otsA_trehalose	0.831	0.385