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 Rv0259c/-:

update plot	correlation	link to info on gene
Rv0060/-	(cc=0.4823)	info on Rv0060/-
Rv1805c/-	(cc=0.4463)	info on Rv1805c/-
Rv0445c/sigK	(cc=0.4419)	info on Rv0445c/sigK
Rv0314c/-	(cc=0.437)	info on Rv0314c/-
Rv3843c/-	(cc=0.4333)	info on Rv3843c/-
Rv2675c/-	(cc=0.4189)	info on Rv2675c/-
Rv3774/echA21	(cc=0.4108)	info on Rv3774/echA21
Rv2322c/rocD1	(cc=0.4069)	info on Rv2322c/rocD1
Rv0604/lpqO	(cc=0.3989)	info on Rv0604/lpqO
Rv3282/-	(cc=0.3959)	info on Rv3282/-

Correlation of Rv0259c/- with Rv0060/-

Normalized LFCs for Rv0259c/-:
(description and provenance of datasets)

	Rv0259c/-	Rv0060/-
Fe_supp_jason_reseq	0.702	0.391
low_pH_jason_reseq	-2.28	-1.134
NO_jason_reseq	0.205	0.0
B6_jason_reseq	1.744	0.0
MHCII_jason_reseq	1.323	0.085
Isoniazid02	-0.541	0.263
Rifampicin4	-2.366	0.712
Ethambutol3	-0.731	0.505
Meropenem3	-1.047	0.662
Vancomycin16	-1.34	0.48
Rv2680_day32	0.136	-0.554
H37Rv_KO_MarP	0.087	0.35
hypoxia_3wks	0.586	-0.606
hypoxia_6wks	1.023	0.146
glycerol	0.832	0.222
cholesterol	-0.387	0.0
AJ	-0.039	0.131
Bibs02	0.415	-1.123
Bibs02c	0.741	0.629
BL6	0.502	0.53
BL6a	0.702	0.595
BXD01	0.624	0.905
BXD010	-1.112	-0.543
BXD011	-0.286	0.268
BXD03	-0.071	0.52
BXD04	-0.414	-0.325
BXD05	-0.33	0.216
BXD06	-0.758	0.342
BXD07	0.237	0.0
BXD08	-0.609	0.0
BXD09	-0.316	-0.173
CAST	1.291	0.976
CCcont	1.018	1.498
DS01	-0.08	-0.45
DS02	-0.232	1.235
DS04	0.187	0.312
DS0c	-1.43	-0.737
GP01	-0.897	0.056
GP02	-1.075	-0.283
GP0c	-0.187	0.942
NOD	-0.037	0.0
NZO	1.037	0.6
PWK	0.897	0.905
H37Rv_KO_CtpC	0.08	0.977
H37Rv_KO_CtpD	0.0	0.989
H37Rv_KO_Rv1272	-1.667	0.227
H37Rv_KO_SugABC	-0.309	0.877
H37Rv_KO_MbtN	-0.345	-0.633
Trans05	-0.164	-0.554
macrophage_unactivated	1.111	1.531
IL1	-0.092	-0.297
Rapamycin	-0.193	0.0
Tcell	1.45	1.352
GMCSF	-0.338	-0.264
IFNab	-1.164	0.0
IFNg	-0.342	-0.551
IFNg_GMCSF1	-0.299	-0.314
Rv1432_day32	0.575	0.0
Rv1565c_day32	-1.339	-0.218
secA2_input	0.554	0.812
delta_Rv3594	-0.965	0.961
delta_Rv3717	0.618	1.851
delta_Rv3811	-0.17	1.335
delta_Rv0954	-1.008	0.0
PonA1	-1.984	-0.245
EccD1_KO	-0.194	0.582
EspI_KO	-0.667	-0.787
PE35_KO	-1.21	-0.589
PPE68_KO	-0.486	-1.133
glycerol2	0.943	1.964
lignocerate	1.206	2.404
oleate	0.054	-0.688
phosphatidylcholine	1.154	1.909
acetate	0.906	2.128
glucAc	1.902	1.868
Rv0950ko	0.908	0.639
Rv1096ko	-0.127	1.194
Rv3684ko	0.517	0.0
delta_otsA_trehalose	0.578	0.366