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 Rv3254/-:

update plot	correlation	link to info on gene
Rv1472/echA12	(cc=0.5954)	info on Rv1472/echA12
Rv1356c/-	(cc=0.5214)	info on Rv1356c/-
Rv1856c/-	(cc=0.4477)	info on Rv1856c/-
Rv2809/-	(cc=0.4041)	info on Rv2809/-
Rv2939/papA5	(cc=0.4003)	info on Rv2939/papA5
Rv2930/fadD26	(cc=0.398)	info on Rv2930/fadD26
Rv2935/ppsE	(cc=0.3927)	info on Rv2935/ppsE
Rv1703c/-	(cc=0.388)	info on Rv1703c/-
Rv2934/ppsD	(cc=0.3828)	info on Rv2934/ppsD
Rv2287/yjcE	(cc=0.3819)	info on Rv2287/yjcE

Correlation of Rv3254/- with Rv1472/echA12

Normalized LFCs for Rv3254/-:
(description and provenance of datasets)

	Rv3254/-	Rv1472/echA12
Fe_supp_jason_reseq	-0.456	-0.332
low_pH_jason_reseq	-0.08	0.417
NO_jason_reseq	0.903	1.365
B6_jason_reseq	-0.289	1.589
MHCII_jason_reseq	0.926	-0.836
Isoniazid02	0.019	0.534
Rifampicin4	-0.517	-0.027
Ethambutol3	0.288	2.531
Meropenem3	0.25	3.02
Vancomycin16	-0.255	0.215
Rv2680_day32	-0.491	-0.012
H37Rv_KO_MarP	0.226	0.303
hypoxia_3wks	-0.032	0.622
hypoxia_6wks	0.217	1.253
glycerol	-0.401	0.022
cholesterol	0.015	0.007
AJ	0.494	0.247
Bibs02	0.433	0.913
Bibs02c	-0.353	0.377
BL6	0.365	0.565
BL6a	0.039	0.723
BXD01	-0.463	1.173
BXD010	-0.149	0.565
BXD011	-0.35	1.173
BXD03	0.42	1.053
BXD04	0.318	1.263
BXD05	0.218	0.99
BXD06	-0.241	0.949
BXD07	-0.028	0.542
BXD08	-0.09	0.894
BXD09	0.148	0.77
CAST	-0.012	2.514
CCcont	0.037	-0.008
DS01	0.116	-0.116
DS02	0.287	0.263
DS04	-0.433	0.502
DS0c	0.38	-0.489
GP01	0.771	0.449
GP02	0.087	0.476
GP0c	-0.251	0.175
NOD	0.706	1.328
NZO	0.77	0.422
PWK	0.077	1.189
H37Rv_KO_CtpC	0.339	0.42
H37Rv_KO_CtpD	0.417	0.419
H37Rv_KO_Rv1272	0.938	0.102
H37Rv_KO_SugABC	0.39	-0.037
H37Rv_KO_MbtN	0.591	1.214
Trans05	0.257	0.787
macrophage_unactivated	2.591	5.498
IL1	-1.068	-2.13
Rapamycin	-0.654	-1.814
Tcell	2.597	6.0
GMCSF	0.407	-2.152
IFNab	-0.46	-2.76
IFNg	-1.045	-2.135
IFNg_GMCSF1	-0.396	-2.592
Rv1432_day32	-0.447	-0.237
Rv1565c_day32	0.243	0.757
secA2_input	0.011	0.853
delta_Rv3594	0.165	-0.606
delta_Rv3717	0.026	-0.91
delta_Rv3811	-0.174	-1.038
delta_Rv0954	-0.646	-0.677
PonA1	-0.6	-0.13
EccD1_KO	0.243	-1.273
EspI_KO	0.368	-0.088
PE35_KO	0.904	0.09
PPE68_KO	1.184	-0.522
glycerol2	-0.038	-0.095
lignocerate	0.487	-0.229
oleate	0.111	0.217
phosphatidylcholine	0.406	0.01
acetate	0.066	-0.204
glucAc	-0.108	-0.419
Rv0950ko	-0.621	0.241
Rv1096ko	-0.112	0.133
Rv3684ko	-0.223	-0.626
delta_otsA_trehalose	0.75	-0.366