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 Rv1194c/-:

update plot	correlation	link to info on gene
Rv1195/PE13	(cc=0.7845)	info on Rv1195/PE13
Rv1196/PPE18	(cc=0.6576)	info on Rv1196/PPE18
Rv3417c/groEL1	(cc=0.5972)	info on Rv3417c/groEL1
Rv2814c/-	(cc=0.4811)	info on Rv2814c/-
Rv2167c/-	(cc=0.479)	info on Rv2167c/-
Rv1364c/-	(cc=0.4774)	info on Rv1364c/-
Rv2431c/PE25	(cc=0.4729)	info on Rv2431c/PE25
Rv1872c/lldD2	(cc=0.4721)	info on Rv1872c/lldD2
Rv1369c/-	(cc=0.4706)	info on Rv1369c/-
Rv2479c/-	(cc=0.4703)	info on Rv2479c/-

Correlation of Rv1194c/- with Rv1872c/lldD2

Normalized LFCs for Rv1194c/-:
(description and provenance of datasets)

	Rv1194c/-	Rv1872c/lldD2
Fe_supp_jason_reseq	-0.549	0.493
low_pH_jason_reseq	0.231	-0.893
NO_jason_reseq	-1.759	-0.971
B6_jason_reseq	-0.604	-1.228
MHCII_jason_reseq	0.829	-1.417
Isoniazid02	0.26	0.418
Rifampicin4	0.558	-0.114
Ethambutol3	-0.339	0.854
Meropenem3	-0.503	0.158
Vancomycin16	0.244	0.48
Rv2680_day32	-0.333	-0.449
H37Rv_KO_MarP	-0.387	-0.591
hypoxia_3wks	0.243	1.12
hypoxia_6wks	0.065	1.533
glycerol	1.906	1.369
cholesterol	1.25	0.764
AJ	1.062	0.062
Bibs02	0.775	-0.285
Bibs02c	0.517	-0.634
BL6	0.99	0.128
BL6a	0.595	-0.296
BXD01	-0.169	0.164
BXD010	-0.117	0.54
BXD011	0.416	0.304
BXD03	0.804	0.252
BXD04	0.796	0.208
BXD05	0.69	1.003
BXD06	0.33	0.469
BXD07	0.159	0.575
BXD08	0.023	0.478
BXD09	0.943	0.318
CAST	-0.082	-1.313
CCcont	0.888	0.04
DS01	1.983	-1.098
DS02	0.844	0.871
DS04	1.456	0.0
DS0c	1.609	-0.22
GP01	0.918	-0.021
GP02	0.261	-0.764
GP0c	0.321	0.442
NOD	0.428	-0.35
NZO	1.043	-0.273
PWK	1.067	-0.355
H37Rv_KO_CtpC	-1.294	1.363
H37Rv_KO_CtpD	0.278	0.774
H37Rv_KO_Rv1272	1.561	1.259
H37Rv_KO_SugABC	1.002	1.162
H37Rv_KO_MbtN	0.135	0.564
Trans05	0.628	0.414
macrophage_unactivated	0.347	-1.515
IL1	-1.447	-2.928
Rapamycin	-0.043	-2.056
Tcell	-2.294	-5.002
GMCSF	-0.396	-1.935
IFNab	1.608	2.174
IFNg	-0.711	-6.0
IFNg_GMCSF1	-0.782	-5.247
Rv1432_day32	-0.24	-0.468
Rv1565c_day32	0.438	-0.224
secA2_input	0.28	1.312
delta_Rv3594	0.254	-0.153
delta_Rv3717	-0.508	-0.389
delta_Rv3811	0.07	-0.225
delta_Rv0954	-0.578	-0.6
PonA1	0.09	-0.697
EccD1_KO	0.408	1.141
EspI_KO	1.184	0.388
PE35_KO	0.785	0.747
PPE68_KO	0.118	0.326
glycerol2	0.535	0.301
lignocerate	-0.356	-0.276
oleate	-1.474	0.899
phosphatidylcholine	0.31	0.342
acetate	-0.712	-1.189
glucAc	-0.865	-0.983
Rv0950ko	0.0	-0.051
Rv1096ko	0.296	-0.772
Rv3684ko	-0.144	-0.891
delta_otsA_trehalose	0.759	1.781