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 Rv3357/relJ:

update plot	correlation	link to info on gene
Rv3749c/-	(cc=0.5817)	info on Rv3749c/-
Rv1356c/-	(cc=0.5394)	info on Rv1356c/-
Rv2287/yjcE	(cc=0.5222)	info on Rv2287/yjcE
Rv2253/-	(cc=0.5185)	info on Rv2253/-
Rv1913/-	(cc=0.4975)	info on Rv1913/-
Rv0187/-	(cc=0.4965)	info on Rv0187/-
Rv1956/higA	(cc=0.4963)	info on Rv1956/higA
Rv2506/-	(cc=0.4961)	info on Rv2506/-
Rv0182c/sigG	(cc=0.4893)	info on Rv0182c/sigG
Rv1316c/ogt	(cc=0.4767)	info on Rv1316c/ogt

Correlation of Rv3357/relJ with Rv0187/-

Normalized LFCs for Rv3357/relJ:
(description and provenance of datasets)

	Rv3357/relJ	Rv0187/-
Fe_supp_jason_reseq	0.314	-1.197
low_pH_jason_reseq	0.0	0.293
NO_jason_reseq	1.202	-0.341
B6_jason_reseq	0.068	1.04
MHCII_jason_reseq	-1.014	0.299
Isoniazid02	0.963	-1.219
Rifampicin4	0.368	-0.29
Ethambutol3	0.561	1.153
Meropenem3	1.057	-0.701
Vancomycin16	0.032	-0.382
Rv2680_day32	0.147	1.972
H37Rv_KO_MarP	0.56	0.776
hypoxia_3wks	0.175	-0.534
hypoxia_6wks	1.048	0.257
glycerol	-0.205	-0.157
cholesterol	-0.278	0.323
AJ	0.711	-0.659
Bibs02	-0.605	-0.376
Bibs02c	-0.326	-1.852
BL6	0.143	0.64
BL6a	0.29	-0.408
BXD01	0.533	0.761
BXD010	0.41	0.975
BXD011	-0.292	0.121
BXD03	-0.908	-1.048
BXD04	-0.283	0.911
BXD05	-0.329	0.246
BXD06	0.055	-0.358
BXD07	-0.051	0.337
BXD08	0.296	0.27
BXD09	-0.052	0.536
CAST	-0.028	0.42
CCcont	0.895	0.729
DS01	0.043	0.861
DS02	-0.386	0.131
DS04	-0.533	-0.583
DS0c	0.789	2.544
GP01	-0.006	-1.533
GP02	-0.477	-0.417
GP0c	-0.64	-0.527
NOD	1.407	0.028
NZO	1.504	0.234
PWK	0.011	0.209
H37Rv_KO_CtpC	-0.434	0.0
H37Rv_KO_CtpD	1.651	0.949
H37Rv_KO_Rv1272	-0.017	0.371
H37Rv_KO_SugABC	0.058	-1.654
H37Rv_KO_MbtN	0.392	-0.31
Trans05	0.974	-0.459
macrophage_unactivated	0.148	-1.793
IL1	-1.771	-1.646
Rapamycin	-2.176	-3.839
Tcell	0.551	1.388
GMCSF	-2.936	-3.25
IFNab	-1.696	-2.201
IFNg	-0.032	-3.4
IFNg_GMCSF1	-0.644	-1.668
Rv1432_day32	1.121	0.477
Rv1565c_day32	-0.174	-2.147
secA2_input	0.872	0.989
delta_Rv3594	0.161	-0.197
delta_Rv3717	-0.477	-0.232
delta_Rv3811	0.748	-0.074
delta_Rv0954	0.65	0.572
PonA1	0.852	-0.532
EccD1_KO	0.408	-0.332
EspI_KO	0.154	-0.125
PE35_KO	-0.353	-0.761
PPE68_KO	-0.339	-0.214
glycerol2	0.692	0.458
lignocerate	0.642	0.575
oleate	0.764	0.337
phosphatidylcholine	0.52	0.381
acetate	-0.108	0.337
glucAc	0.383	1.47
Rv0950ko	-0.338	0.501
Rv1096ko	0.92	1.034
Rv3684ko	-1.041	1.837
delta_otsA_trehalose	0.466	0.527