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 Rv0872c/PE_PGRS15:

update plot	correlation	link to info on gene
Rv1981c/nrdF1	(cc=0.5792)	info on Rv1981c/nrdF1
Rv3738c/PPE66	(cc=0.5147)	info on Rv3738c/PPE66
Rv3784/-	(cc=0.4699)	info on Rv3784/-
Rv1862/adhA	(cc=0.4596)	info on Rv1862/adhA
Rv3389c/htdY	(cc=0.452)	info on Rv3389c/htdY
Rv1847/-	(cc=0.4498)	info on Rv1847/-
Rv1808/PPE32	(cc=0.4491)	info on Rv1808/PPE32
Rv3487c/lipF	(cc=0.449)	info on Rv3487c/lipF
Rv0834c/PE_PGRS14	(cc=0.4483)	info on Rv0834c/PE_PGRS14
Rv2675c/-	(cc=0.4446)	info on Rv2675c/-

Correlation of Rv0872c/PE_PGRS15 with Rv1862/adhA

Normalized LFCs for Rv0872c/PE_PGRS15:
(description and provenance of datasets)

	Rv0872c/PE_PGRS15	Rv1862/adhA
Fe_supp_jason_reseq	0.14	-0.481
low_pH_jason_reseq	-1.631	-0.748
NO_jason_reseq	-0.32	-0.121
B6_jason_reseq	0.24	-0.206
MHCII_jason_reseq	0.762	-0.798
Isoniazid02	-0.473	0.611
Rifampicin4	0.671	0.861
Ethambutol3	-0.406	0.308
Meropenem3	0.059	0.31
Vancomycin16	-0.194	0.491
Rv2680_day32	0.061	0.335
H37Rv_KO_MarP	-0.045	0.095
hypoxia_3wks	-0.175	0.06
hypoxia_6wks	-0.76	0.094
glycerol	0.581	1.059
cholesterol	0.441	0.697
AJ	0.197	0.027
Bibs02	0.228	0.184
Bibs02c	0.782	0.095
BL6	0.332	0.678
BL6a	0.74	0.313
BXD01	0.276	0.192
BXD010	-0.058	0.302
BXD011	-0.107	0.704
BXD03	0.133	-0.16
BXD04	-0.047	-0.406
BXD05	0.468	0.239
BXD06	-0.06	0.302
BXD07	0.117	0.491
BXD08	0.412	0.301
BXD09	0.148	0.312
CAST	0.637	-0.082
CCcont	0.106	0.555
DS01	-0.161	0.654
DS02	0.17	-0.451
DS04	0.447	1.044
DS0c	-0.218	0.751
GP01	0.25	0.104
GP02	0.146	1.94
GP0c	-0.039	0.138
NOD	0.236	0.296
NZO	-0.201	0.023
PWK	-0.104	-0.257
H37Rv_KO_CtpC	0.265	0.507
H37Rv_KO_CtpD	0.351	0.481
H37Rv_KO_Rv1272	0.952	0.724
H37Rv_KO_SugABC	0.895	0.451
H37Rv_KO_MbtN	0.369	0.313
Trans05	0.419	0.271
macrophage_unactivated	1.004	0.748
IL1	0.225	-0.317
Rapamycin	0.847	1.2
Tcell	0.534	0.117
GMCSF	0.069	-0.04
IFNab	0.378	0.342
IFNg	0.313	0.019
IFNg_GMCSF1	0.214	0.204
Rv1432_day32	0.272	0.076
Rv1565c_day32	-0.351	0.377
secA2_input	0.094	-0.257
delta_Rv3594	-0.162	0.054
delta_Rv3717	-0.646	-0.247
delta_Rv3811	-0.47	0.199
delta_Rv0954	-0.885	0.332
PonA1	-0.247	-0.635
EccD1_KO	0.02	0.539
EspI_KO	-0.128	-0.043
PE35_KO	-0.248	0.236
PPE68_KO	-0.294	0.189
glycerol2	1.338	1.471
lignocerate	1.169	1.774
oleate	1.262	0.601
phosphatidylcholine	1.195	1.529
acetate	0.281	1.348
glucAc	0.554	1.647
Rv0950ko	0.208	-0.048
Rv1096ko	0.208	0.422
Rv3684ko	0.226	-0.206
delta_otsA_trehalose	-0.152	-1.162