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 Rv3833/-:

update plot	correlation	link to info on gene
Rv1505c/-	(cc=0.4624)	info on Rv1505c/-
Rv2762c/-	(cc=0.4583)	info on Rv2762c/-
Rv1607/chaA	(cc=0.4522)	info on Rv1607/chaA
Rv0078/-	(cc=0.43)	info on Rv0078/-
Rv0078A/-	(cc=0.4271)	info on Rv0078A/-
Rv1980c/mpt64	(cc=0.4206)	info on Rv1980c/mpt64
Rv1176c/-	(cc=0.4175)	info on Rv1176c/-
Rv3126c/-	(cc=0.4086)	info on Rv3126c/-
Rv1517/-	(cc=0.4043)	info on Rv1517/-
Rv1889c/-	(cc=0.397)	info on Rv1889c/-

Correlation of Rv3833/- with Rv1889c/-

Normalized LFCs for Rv3833/-:
(description and provenance of datasets)

	Rv3833/-	Rv1889c/-
Fe_supp_jason_reseq	-0.461	-0.237
low_pH_jason_reseq	-0.823	-0.223
NO_jason_reseq	0.181	-1.515
B6_jason_reseq	-0.166	-0.589
MHCII_jason_reseq	-0.627	-2.209
Isoniazid02	-0.631	0.201
Rifampicin4	-0.246	0.298
Ethambutol3	-0.04	-0.302
Meropenem3	-0.896	-0.397
Vancomycin16	-0.21	0.061
Rv2680_day32	0.918	-0.119
H37Rv_KO_MarP	0.773	0.55
hypoxia_3wks	-0.283	-0.53
hypoxia_6wks	0.017	-0.378
glycerol	0.146	-2.319
cholesterol	-0.856	-2.203
AJ	-0.993	-1.377
Bibs02	0.323	-0.348
Bibs02c	-0.555	0.174
BL6	-0.668	0.792
BL6a	0.743	1.4
BXD01	0.344	0.654
BXD010	1.408	1.514
BXD011	0.353	1.527
BXD03	0.467	1.267
BXD04	0.601	-0.113
BXD05	0.821	2.079
BXD06	0.461	0.833
BXD07	0.552	0.809
BXD08	0.667	0.94
BXD09	0.72	1.286
CAST	0.374	1.436
CCcont	-0.547	1.016
DS01	0.135	0.236
DS02	-0.772	0.217
DS04	-2.361	-2.129
DS0c	-0.745	1.435
GP01	-0.16	1.731
GP02	-0.295	0.069
GP0c	-0.54	0.521
NOD	3.093	0.646
NZO	-1.396	-1.589
PWK	-0.101	0.163
H37Rv_KO_CtpC	-0.362	-1.783
H37Rv_KO_CtpD	1.105	2.528
H37Rv_KO_Rv1272	-0.64	2.005
H37Rv_KO_SugABC	-1.444	-1.756
H37Rv_KO_MbtN	1.253	-0.359
Trans05	1.186	1.798
macrophage_unactivated	0.761	2.834
IL1	0.59	-0.128
Rapamycin	0.43	0.252
Tcell	0.13	-1.75
GMCSF	1.117	0.385
IFNab	0.992	2.001
IFNg	0.473	1.449
IFNg_GMCSF1	0.578	1.159
Rv1432_day32	0.074	-1.328
Rv1565c_day32	-0.351	-1.275
secA2_input	1.271	-0.031
delta_Rv3594	-0.782	-1.632
delta_Rv3717	-0.284	-0.084
delta_Rv3811	-0.296	-0.755
delta_Rv0954	0.464	0.226
PonA1	-0.097	-0.268
EccD1_KO	0.737	-2.375
EspI_KO	-1.352	-0.918
PE35_KO	-0.615	-0.971
PPE68_KO	-0.346	-1.565
glycerol2	-0.9	0.209
lignocerate	-1.335	0.43
oleate	-0.136	-0.871
phosphatidylcholine	-0.878	0.078
acetate	0.163	-0.198
glucAc	-1.922	0.759
Rv0950ko	0.274	0.356
Rv1096ko	0.615	-1.285
Rv3684ko	0.393	-0.111
delta_otsA_trehalose	1.353	-0.016