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 Rv0273c/-:

update plot	correlation	link to info on gene
Rv1550/fadD11	(cc=0.5223)	info on Rv1550/fadD11
Rv1191/-	(cc=0.5107)	info on Rv1191/-
Rv3539/PPE63	(cc=0.4803)	info on Rv3539/PPE63
Rv2451/-	(cc=0.4653)	info on Rv2451/-
Rv2643/arsC	(cc=0.437)	info on Rv2643/arsC
Rv2769c/PE27	(cc=0.4351)	info on Rv2769c/PE27
Rv3761c/fadE36	(cc=0.4131)	info on Rv3761c/fadE36
Rv0687/-	(cc=0.4093)	info on Rv0687/-
Rv2311/-	(cc=0.4084)	info on Rv2311/-
Rv2405/-	(cc=0.4041)	info on Rv2405/-

Correlation of Rv0273c/- with Rv2451/-

Normalized LFCs for Rv0273c/-:
(description and provenance of datasets)

	Rv0273c/-	Rv2451/-
Fe_supp_jason_reseq	-0.497	1.092
low_pH_jason_reseq	-0.465	0.647
NO_jason_reseq	-0.16	2.707
B6_jason_reseq	-0.25	-0.615
MHCII_jason_reseq	0.358	-0.031
Isoniazid02	0.24	0.851
Rifampicin4	0.0	0.103
Ethambutol3	0.338	1.853
Meropenem3	3.393	5.025
Vancomycin16	0.738	0.419
Rv2680_day32	-0.305	-0.786
H37Rv_KO_MarP	0.941	-1.762
hypoxia_3wks	0.203	0.61
hypoxia_6wks	0.0	1.031
glycerol	0.0	0.257
cholesterol	-0.396	0.435
AJ	-0.17	-0.788
Bibs02	-0.827	-2.208
Bibs02c	-0.459	-0.258
BL6	0.42	0.977
BL6a	-0.237	0.707
BXD01	0.896	2.221
BXD010	-1.253	1.42
BXD011	0.427	1.471
BXD03	-0.099	0.885
BXD04	0.427	0.744
BXD05	0.195	1.653
BXD06	0.786	1.453
BXD07	0.361	1.429
BXD08	-0.039	2.196
BXD09	0.204	1.389
CAST	0.063	-1.113
CCcont	0.102	1.705
DS01	-0.32	-0.342
DS02	-0.983	-1.413
DS04	0.305	0.145
DS0c	-0.328	-2.904
GP01	0.858	0.752
GP02	-0.452	-0.705
GP0c	0.311	0.273
NOD	-0.13	0.042
NZO	0.669	0.793
PWK	-0.028	-0.117
H37Rv_KO_CtpC	0.545	2.136
H37Rv_KO_CtpD	-0.112	-0.651
H37Rv_KO_Rv1272	0.796	2.383
H37Rv_KO_SugABC	0.447	0.986
H37Rv_KO_MbtN	-0.636	0.642
Trans05	0.648	1.886
macrophage_unactivated	0.0	0.0
IL1	-0.581	0.94
Rapamycin	0.236	0.221
Tcell	0.411	0.564
GMCSF	-1.31	0.341
IFNab	-0.877	-1.085
IFNg	-0.446	0.096
IFNg_GMCSF1	0.082	0.226
Rv1432_day32	0.155	0.016
Rv1565c_day32	0.306	0.445
secA2_input	1.335	-0.992
delta_Rv3594	0.067	0.098
delta_Rv3717	0.307	-0.365
delta_Rv3811	0.745	0.385
delta_Rv0954	-0.028	0.056
PonA1	0.366	-0.583
EccD1_KO	-0.977	-0.372
EspI_KO	-0.228	-0.04
PE35_KO	-0.201	0.414
PPE68_KO	-0.413	0.688
glycerol2	0.752	1.014
lignocerate	0.444	1.147
oleate	0.669	1.813
phosphatidylcholine	0.776	0.667
acetate	0.106	0.141
glucAc	-0.363	0.501
Rv0950ko	0.443	0.039
Rv1096ko	0.115	-0.802
Rv3684ko	-0.085	0.216
delta_otsA_trehalose	-2.517	-0.283